Nhlh1 (nescient helix loop helix 1)

Gene: Nhlh1 (nescient helix loop helix 1) Rattus norvegicus

Analyze

Symbol:

Nhlh1

Name:

nescient helix loop helix 1

RGD ID:

1310261

Description:

Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Orthologous to human NHLH1 (nescient helix-loop-helix 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

helix-loop-helix protein 1; LOC289230

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	NHLH1 (nescient helix-loop-helix 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB
Mus musculus (house mouse):	Nhlh1 (nescient helix loop helix 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Nhlh1 (nescient helix-loop-helix 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	NHLH1 (nescient helix-loop-helix 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	NHLH1 (nescient helix-loop-helix 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Nhlh1 (nescient helix-loop-helix 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	NHLH1 (nescient helix-loop-helix 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	NHLH1 (nescient helix-loop-helix 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Nhlh1 (nescient helix-loop-helix 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	NHLH1 (nescient helix-loop-helix 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Mus musculus (house mouse):	Nhlh1 (nescient helix loop helix 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	hlh-15	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|SonicParanoid)
Drosophila melanogaster (fruit fly):	HLH4C	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	nhlh1	Alliance	DIOPT (OMA\|OrthoFinder\|PANTHER\|PhylomeDB)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	13	87,049,733 - 87,054,934 (-)	NCBI		GRCr8
mRatBN7.2	13	84,517,347 - 84,522,548 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	13	84,517,289 - 84,525,094 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	13	87,020,685 - 87,025,886 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	13	88,420,948 - 88,426,149 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	13	85,605,569 - 85,610,770 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	13	90,437,956 - 90,443,157 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	13	90,437,956 - 90,443,157 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	13	94,960,920 - 94,966,121 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	13	88,047,392 - 88,052,593 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	13	88,237,802 - 88,241,396 (-)	NCBI
Celera	13	84,129,141 - 84,134,342 (-)	NCBI		Celera
Cytogenetic Map	13	q24	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autoimmune interstitial lung, joint, and kidney disease (ISO)

gastrointestinal stromal tumor (ISO)

parathyroid carcinoma (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,2',5,5'-tetrachlorobiphenyl (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP)

2,3,7,8-Tetrachlorodibenzofuran (EXP)

4,4'-diaminodiphenylmethane (ISO)

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

antimycin A (ISO)

aristolochic acid A (ISO)

atrazine (ISO)

azoxystrobin (ISO)

benzo[a]pyrene (ISO)

bis(2-chloroethyl) sulfide (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

butanal (ISO)

cadmium dichloride (ISO)

carbamazepine (ISO)

carbon nanotube (ISO)

fulvestrant (ISO)

lead(0) (ISO)

Licochalcone B (ISO)

lipopolysaccharide (ISO)

lithium chloride (ISO)

N-methyl-4-phenylpyridinium (ISO)

PCB138 (ISO)

pirinixic acid (ISO)

pyrimidifen (ISO)

rotenone (ISO)

Soman (EXP)

thalidomide (ISO)

trichloroethene (EXP)

triptonide (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

positive regulation of transcription by RNA polymerase II (ISO)

regulation of transcription by RNA polymerase II (IBA)

Molecular Function

DNA-binding transcription activator activity, RNA polymerase II-specific (ISO)

DNA-binding transcription factor activity, RNA polymerase II-specific (IBA)

protein binding (ISO)

protein dimerization activity (IEA)

RNA polymerase II cis-regulatory region sequence-specific DNA binding (IBA)

RNA polymerase II transcription regulatory region sequence-specific DNA binding (ISO)

sequence-specific double-stranded DNA binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
3.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:12878195

Genomics

Comparative Map Data

Nhlh1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	13	87,049,733 - 87,054,934 (-)	NCBI		GRCr8
mRatBN7.2	13	84,517,347 - 84,522,548 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	13	84,517,289 - 84,525,094 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	13	87,020,685 - 87,025,886 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	13	88,420,948 - 88,426,149 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	13	85,605,569 - 85,610,770 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	13	90,437,956 - 90,443,157 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	13	90,437,956 - 90,443,157 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	13	94,960,920 - 94,966,121 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	13	88,047,392 - 88,052,593 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	13	88,237,802 - 88,241,396 (-)	NCBI
Celera	13	84,129,141 - 84,134,342 (-)	NCBI		Celera
Cytogenetic Map	13	q24	NCBI

NHLH1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	160,367,071 - 160,372,846 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	160,367,071 - 160,372,846 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	1	160,336,861 - 160,342,636 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	158,603,498 - 158,609,229 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	1	157,149,946 - 157,155,673	NCBI
Celera	1	133,405,619 - 133,411,396 (+)	NCBI		Celera
Cytogenetic Map	1	q23.2	NCBI
HuRef	1	131,693,002 - 131,698,779 (+)	NCBI		HuRef
CHM1_1	1	161,732,200 - 161,737,981 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	1	159,504,143 - 159,509,918 (+)	NCBI		T2T-CHM13v2.0

Nhlh1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	1	171,879,859 - 171,885,163 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	1	171,879,859 - 171,885,140 (-)	Ensembl		GRCm39 Ensembl
GRCm38	1	172,052,292 - 172,057,596 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	1	172,052,292 - 172,057,573 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	1	173,982,423 - 173,987,727 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	1	173,888,967 - 173,894,238 (-)	NCBI		MGSCv36	mm8
Celera	1	174,906,526 - 174,911,828 (-)	NCBI		Celera
Cytogenetic Map	1	H3	NCBI
cM Map	1	79.54	NCBI

Nhlh1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955468	12,133,717 - 12,137,700 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955468	12,133,717 - 12,137,700 (+)	NCBI	ChiLan1.0	ChiLan1.0

NHLH1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	1	89,477,228 - 89,484,708 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	1	89,217,185 - 89,224,677 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	1	135,721,367 - 135,727,206 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	1	139,642,016 - 139,647,802 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	139,645,680 - 139,646,081 (+)	Ensembl	panpan1.1		panPan2

NHLH1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	38	21,867,603 - 21,868,942 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	38	21,941,576 - 21,942,304 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	38	21,984,336 - 21,985,064 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	38	21,984,366 - 21,984,761 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	38	21,889,193 - 21,889,921 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	38	22,285,703 - 22,286,431 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	38	22,695,487 - 22,696,215 (-)	NCBI		UU_Cfam_GSD_1.0

Nhlh1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405058	6,475,928 - 6,481,294 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936740	274,395 - 278,419 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936740	273,294 - 278,419 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

NHLH1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	90,109,057 - 90,109,458 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	90,107,243 - 90,116,068 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	97,999,109 - 98,011,523 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

NHLH1
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	20	3,576,519 - 3,582,427 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	20	3,578,227 - 3,578,628 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666038	2,634,274 - 2,637,372 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Nhlh1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624794	896,557 - 896,958 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624794	896,416 - 900,669 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Nhlh1
12 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	459
Count of miRNA genes:	220
Interacting mature miRNAs:	262
Transcripts:	ENSRNOT00000006862
Prediction methods:	Microtar, Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	13	1	101056920	Rat
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	1	101056920	Rat
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	1	101056920	Rat
1581570	Eae17	Experimental allergic encephalomyelitis QTL 17	4.1		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	13	8897350	101631289	Rat
7207885	Glom27	Glomerulus QTL 27	3.9		kidney glomerulus integrity trait (VT:0010546)	kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)	13	20605871	101339738	Rat
1354621	Rf47	Renal function QTL 47	3.7		kidney renin amount (VT:0010559)	kidney renin level (CMO:0002166)	13	30395351	101056920	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	13	31241331	93395974	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	31241331	93395974	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	31241331	93395974	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	absolute change in mean arterial blood pressure (CMO:0000533)	13	31241331	93395974	Rat
619615	Bp80	Blood pressure QTL 80		0.0354	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	39754544	84754544	Rat
12879444	Bp397	Blood pressure QTL 397			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	45049404	90049404	Rat
12879471	Bp398	Blood pressure QTL 398			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	45514719	90514719	Rat
12879441	Bp396	Blood pressure QTL 396			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	45699983	90699983	Rat
1298066	Bp159	Blood pressure QTL 159		0.004	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	46088046	91088046	Rat
71119	Thym2	Thymus enlargement QTL 2	3.8		thymus mass (VT:0004954)	thymus weight to body weight ratio (CMO:0000612)	13	46197976	84753113	Rat
1641901	Alcrsp6	Alcohol response QTL 6			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	13	52362171	97362171	Rat
1354655	Bp241	Blood pressure QTL 241	3.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	56056920	101056920	Rat
738026	Lnnr5	Liver neoplastic nodule remodeling QTL 5	3.29		liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number (CMO:0001461)	13	59874408	85581182	Rat
12879475	Bp400	Blood pressure QTL 400			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	61825626	106807694	Rat
2293702	Bss34	Bone structure and strength QTL 34	4.61	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	13	65103704	106807694	Rat
2293687	Bss26	Bone structure and strength QTL 26	4.6	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	13	65103704	106807694	Rat
8655945	Rf61	Renal function QTL 61	3.6		blood creatinine amount (VT:0005328)	creatinine clearance (CMO:0000765)	13	69060519	86800898	Rat
1331783	Bp221	Blood pressure QTL 221	3.72886		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	69060519	86800898	Rat
1300166	Kidm6	Kidney mass QTL 6	3.93		kidney mass (VT:0002707)	single kidney wet weight to body weight ratio (CMO:0000622)	13	69060519	86800898	Rat
8655959	Pur32	Proteinuria QTL 32	8.4		urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	13	74023918	97213863	Rat
738027	Lnnr6	Liver neoplastic nodule remodeling QTL 6	3.3		liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number (CMO:0001461)	13	74862117	85581182	Rat
2293341	Glom15	Glomerulus QTL 15	9.1		kidney glomerulus integrity trait (VT:0010546)	kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)	13	74862117	101339893	Rat
4889606	Gluco63	Glucose level QTL 63	2.86	0.003	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	13	80753256	106807694	Rat

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hepatobiliary system	nervous system	renal system	reproductive system
High
Medium						43		2
Low						17	2	8
Below cutoff	1	10	6	6	6	14	12	14

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001105970	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006250280	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063272130	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473985	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000013	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000006862 ⟹ ENSRNOP00000006862

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	13	84,517,289 - 84,525,094 (-)	Ensembl
Rnor_6.0 Ensembl	13	90,437,956 - 90,443,157 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000102039 ⟹ ENSRNOP00000081608

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	13	84,517,289 - 84,525,094 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000115003 ⟹ ENSRNOP00000084535

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	13	84,517,344 - 84,525,094 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000118275 ⟹ ENSRNOP00000085267

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	13	84,517,289 - 84,525,094 (-)	Ensembl

RefSeq Acc Id:

NM_001105970 ⟹ NP_001099440

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	13	87,049,733 - 87,054,934 (-)	NCBI
mRatBN7.2	13	84,517,347 - 84,522,548 (-)	NCBI
Rnor_6.0	13	90,437,956 - 90,443,157 (-)	NCBI
Rnor_5.0	13	94,960,920 - 94,966,121 (-)	NCBI
RGSC_v3.4	13	88,047,392 - 88,052,593 (-)	RGD
Celera	13	84,129,141 - 84,134,342 (-)	RGD

Sequence:

show sequence

CAGGTGTGTGAATGTGCGGTGAGTGTGTGAATGTGTGGGTGTGTGAGTGTGTGCATGTACGTAT
GAGTGTGCGTGTGAGTGACTCCAGTTCCGGATTGAGGCCATCCCTCCTGCCTAGGCCTTCAGGA
TGTGTACCCTTCTCATCCGTCCTGGATCCTGTTCAGCCACAACAAGCTGCCCCTAAGAGCTCTA
GAAACTGCTCACTAACTTTGCAGACAGATGACCCTTGAGCAGCGAGAAGAGACTGGGGCTCTCC
ACGCTCGCTTGCTGTCCCCCTCACTTGTCACCTTGGATTCCTGGAGAGTCCTTCTAGGCTCCAG
GCTGGAATCTTGACCATGAAACTTTGAAGTAACTGCTTTCCAGAGCTCAGTGGCAGACCCTAGC
ACTCGAGGCCCTTCCTGCCTTTCTCACAACCCTCTTTCAAGCTCCCAAAGGGAGGGGTGGGGAG
AGGATCCGCATTTCCATAGGTGTGGATTTTCCACCATGATGCTCAACTCCGACACCATGGAGCT
GGATCTTCCTCCCACGCACTCGGAGACCGAGTCGGGCTTTAGCGACTGTGGGGGCGGGCCGGGC
CCGGATGGTGCTGGATCGGGCGATCCGGGAGTGGGCCAGGTCCGGAGCTTAGAGCTCGGAGAGT
CCGGCCGCAAAGACCTGCAGCACTTGAGCCGTGAGGAGCGCAGGCGCCGGCGCCGCGCCACGGC
CAAGTACCGCACAGCGCACGCCACGCGGGAGCGCATCCGCGTGGAAGCCTTCAACCTGGCCTTC
GCCGAGCTGCGCAAGCTGCTGCCCACTCTGCCCCCGGACAAGAAACTCTCCAAGATTGAGATCC
TGCGCCTGGCCATCTGCTATATCTCTTACCTGAACCACGTGCTGGATGTCTGAACTCAGTCCGA
ATCCGGCCCTGGATTCTCCCCTTTTCCCTGGGCCTCTCCAGAGCCCCTTGTCACCATGCATTAC
TTAGAATGGCCGGCTGCTGCCCATCCCAGAGCACCAGGCTCCCGTCCGTCCTGAAGGCCACTTT
CTTTTCTTTGGCCCAGGAATGTGAAGGATGTTCTTAAGGGTTCCTTCAGAGAGTTGTTCGGGCC
TAGCTGGTCAGGGTTGCTTGTCAGAGTGGTCAGAATGGAGTCCTTGCTGGGTTAACTAAGCCTA
GCCTCTACTCAGCTGCTGCCTTTTCTGCCCCATGTCCAAGTTTTCAGAGACCCCAGACCCTGAC
TCTGTCTTCTGACAATGGTGGGACTCAGCAGAATAGGAAGGGGAACTGACTAGTAGCAGAGGTT
GGGCAAACGGGGTTCCTAACTCCCAGACTTGTCTGTCCATGCGGGGGTGGGGGAGGGAGGGCAT
GGACTCTTGGGAAGGCAGAGAGATGAGGGAGGTGACTCCTGGGTAGCCAGGGATTATAGGAAAA
TTCTTCCCTTTGTCTCTCTTGCTCCTGAGGCTTAGGATATATAGACCTCAGATCTAACTTGGTA
GTGAGTGCCTTGCCTTCCTGGAGCTGACTGGCCACTCCCCGGGTCCCTTCCCACACCTGCCATC
CCAGAATTCTCCCTTTCCCTGTGCTGTCTAGAGAAAGGAACACCTCAGCCCTGGGATAAGGAGG
ACACCTCCAAACAGCCCAGGGCACCTTGCAGAAGGCTCAGGCCCTGAGTGGGGCAGCTCTTCAG
CCGCTGCTTCTGTCCCAGTGGACCCTTGAAAACATGCGAACCCCACCAGCTCCTCCCTCAGACG
CAGGAGGATGCCTGCGACTGCCCTCTGCGAAGGATCTAGGGCCTTATTACATTTCCCCCTTCCA
TTCTTAAATTGCCGTGGGCAGGAAGGTGCCCCTCCCCCCCCATGCTGCTGAGCCTACCAGCCCT
TGTAGCCTGTGACCTCGGTCTCTGGGCTTTAGACTCCCTGTAGATGAAGTCACTGCTTTTCTCT
GCTCCGTCCACTCTCACACCAAACTCCTAGCTCTACAAGGATATTTATTTATGTATTTATTTAT
TCACTTATTTATTTATTTATTTATAAATATTACTATTTATTACCGAGTTATGCACTTTGGGGTA
GGGCGAGGAGGGCTCCTTGCAGCGAGCTCTAGCTAGGGTCCTCTTGCTTTCTCCCGGGTCACTT
CTTCCTTCTCCAGTGCAAGCGTGGGGGTGGGGATCCCTTCACCCACCATACTGGTACGCCTTCC
TCAGCTCCATCTGTCTCTGTCCCCTTTCCTCTGGAATAGTGCCCCTTCCCAGCCTCCCAGCTTC
CGGGGGTCTCTCTCAATCTCTGCCCCCCAATCCTGACAATCCCACTTCAGTCCTATCTACTCCA
TTCCTCTTTACCAGCCCTGCTTTTTCCAATATCACTAGGAGCAGACCCCGGGCTCTGTGTCTAG
TGTCCTGTGTGGAAGTCTTTGTCTGGTTGCATTCCTACTTTCTTACAAAAAGAAAAATTAAAGT
GACCTCGATCTAGTACCAGA

hide sequence

RefSeq Acc Id:

XM_063272130 ⟹ XP_063128200

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	13	87,049,735 - 87,054,933 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001099440	(Get FASTA)	NCBI Sequence Viewer
	XP_063128200	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL94673	(Get FASTA)	NCBI Sequence Viewer
	EDL94674	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000006862
	ENSRNOP00000006862.3
	ENSRNOP00000081608.1
	ENSRNOP00000084535.1
	ENSRNOP00000085267.1

RefSeq Acc Id:	NP_001099440 ⟸ NM_001105970
- UniProtKB:	D3ZN93 (UniProtKB/TrEMBL), A6JG17 (UniProtKB/TrEMBL)
- Sequence:	show sequence MMLNSDTMELDLPPTHSETESGFSDCGGGPGPDGAGSGDPGVGQVRSLELGESGRKDLQHLSRE ERRRRRRATAKYRTAHATRERIRVEAFNLAFAELRKLLPTLPPDKKLSKIEILRLAICYISYLN HVLDV hide sequence

RefSeq Acc Id:

ENSRNOP00000006862 ⟸ ENSRNOT00000006862

RefSeq Acc Id:

ENSRNOP00000085267 ⟸ ENSRNOT00000118275

RefSeq Acc Id:

ENSRNOP00000081608 ⟸ ENSRNOT00000102039

RefSeq Acc Id:

ENSRNOP00000084535 ⟸ ENSRNOT00000115003

RefSeq Acc Id:	XP_063128200 ⟸ XM_063272130
- Peptide Label:	isoform X1
- UniProtKB:	A6JG17 (UniProtKB/TrEMBL), D3ZN93 (UniProtKB/TrEMBL)

Protein Domains

bHLH

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D3ZN93-F1-model_v2	AlphaFold	D3ZN93	1-133	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1310261	AgrOrtholog
BioCyc Gene	G2FUF-17334	BioCyc
Ensembl Genes	ENSRNOG00000005166	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000006862	ENTREZGENE
	ENSRNOT00000006862.5	UniProtKB/TrEMBL
	ENSRNOT00000102039.1	UniProtKB/TrEMBL
	ENSRNOT00000115003.1	UniProtKB/TrEMBL
	ENSRNOT00000118275.1	UniProtKB/TrEMBL
Gene3D-CATH	4.10.280.10	UniProtKB/TrEMBL
InterPro	HLH_DNA-bd	UniProtKB/TrEMBL
	HLH_DNA-bd_sf	UniProtKB/TrEMBL
	TAL-like	UniProtKB/TrEMBL
KEGG Report	rno:289230	UniProtKB/TrEMBL
NCBI Gene	289230	ENTREZGENE
PANTHER	HELIX-LOOP-HELIX PROTEIN 1	UniProtKB/TrEMBL
	PTHR13864	UniProtKB/TrEMBL
Pfam	HLH	UniProtKB/TrEMBL
PhenoGen	Nhlh1	PhenoGen
PROSITE	HLH	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000005166	RatGTEx
SMART	HLH	UniProtKB/TrEMBL
Superfamily-SCOP	HLH_basic	UniProtKB/TrEMBL
UniProt	A6JG17	ENTREZGENE, UniProtKB/TrEMBL
	D3ZN93	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-04-30	Nhlh1	nescient helix loop helix 1	Nhlh1_predicted	nescient helix loop helix 1 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Nhlh1_predicted	nescient helix loop helix 1 (predicted)			Symbol and Name status set to approved	70820	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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Imported Disease Annotations - ClinVar