Crocc ciliary rootlet coiled-coil, rootletin [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Croccprovided by MGI
Official Full Name: ciliary rootlet coiled-coil, rootletinprovided by MGI
Primary source: MGI:MGI:3529431
See related: Ensembl:ENSMUSG00000040860 AllianceGenome:MGI:3529431
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Summary: Enables actin binding activity; kinesin binding activity; and structural molecule activity. A structural constituent of cytoskeleton. Acts upstream of or within ciliary basal body organization; establishment of organelle localization; and tissue homeostasis. Located in several cellular components, including cytoskeleton; photoreceptor inner segment; and subapical part of cell. Is expressed in brain; metanephros; and retina layer. Orthologous to human CROCC (ciliary rootlet coiled-coil, rootletin). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in ovary adult (RPKM 11.7), cortex adult (RPKM 10.1) and 24 other tissues See more
Orthologs: human all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 4 D3; 4 73.31 cM

Exon count:: 40

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	4	NC_000070.7 (140743948..140787927, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	4	NC_000070.6 (141016637..141060615, complement)

Chromosome 4 - NC_000070.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Roles for ELMOD2 and Rootletin in ciliogenesis.
Title: Roles for ELMOD2 and Rootletin in ciliogenesis.
Data indicate that ciliary rootlets are composed of homopolymeric rootletin protofilaments bundled into variably shaped thick filaments.
Title: Rootletin, a novel coiled-coil protein, is a structural component of the ciliary rootlet.

Submit: New GeneRIF Correction

Variation

Go to the top of the page Help

Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (1) 1 citation
Endonuclease-mediated (3)

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables actin binding	IDA Inferred from Direct Assay more info	PubMed
enables kinesin binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables structural constituent of cytoskeleton	IMP Inferred from Mutant Phenotype more info	PubMed
enables structural molecule activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell cycle	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cell projection organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cellular homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in centriole-centriole cohesion	ISO Inferred from Sequence Orthology more info
involved_in centrosome cycle	IBA Inferred from Biological aspect of Ancestor more info
involved_in centrosome cycle	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within ciliary basal body organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within epithelial structure maintenance	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within establishment of localization in cell	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within establishment of organelle localization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within photoreceptor cell maintenance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cilium assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein localization to cilium	ISO Inferred from Sequence Orthology more info
involved_in protein localization	ISO Inferred from Sequence Orthology more info
involved_in protein localization to organelle	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in 9+2 motile cilium	IDA Inferred from Direct Assay more info	PubMed
located_in actin cytoskeleton	ISO Inferred from Sequence Orthology more info
located_in cell projection	IEA Inferred from Electronic Annotation more info
is_active_in centriole	IBA Inferred from Biological aspect of Ancestor more info
located_in centriole	IDA Inferred from Direct Assay more info	PubMed
located_in centriole	ISO Inferred from Sequence Orthology more info	PubMed
is_active_in centrosome	IBA Inferred from Biological aspect of Ancestor more info
located_in centrosome	ISO Inferred from Sequence Orthology more info
located_in ciliary rootlet	IDA Inferred from Direct Assay more info	PubMed
located_in ciliary rootlet	IMP Inferred from Mutant Phenotype more info	PubMed
located_in cilium	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in photoreceptor inner segment	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in subapical part of cell	IDA Inferred from Direct Assay more info	PubMed

General protein information

Go to the top of the page Help

Preferred Names: rootletin

Names: ciliary rootlet coiled-coil protein

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001145958.2 → NP_001139430.1 rootletin isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus and lacks an alternate internal segment compared to isoform 1.

Source sequence(s)

AL645625

Consensus CDS

CCDS51346.1

UniProtKB/Swiss-Prot

Q8CJ40

Related

ENSMUSP00000095425.3, ENSMUST00000097816.9

Conserved Domains (4) summary

COG1196
Location:927 → 1717

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

TIGR02168
Location:590 → 1262

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam15035
Location:34 → 171

Rootletin; Ciliary rootlet component, centrosome cohesion

cl19219
Location:820 → 888

DUF342; Protein of unknown function (DUF342)
NM_172122.3 → NP_742120.2 rootletin isoform 1

See identical proteins and their annotated locations for NP_742120.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

AL645625

Consensus CDS

CCDS18861.1

UniProtKB/Swiss-Prot

A2AA81, Q7TQL2, Q80U01, Q8CJ40, Q8R0B9

Related

ENSMUSP00000099549.4, ENSMUST00000102491.10

Conserved Domains (4) summary

TIGR02168
Location:89 → 931

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam01576
Location:703 → 1802

Myosin_tail_1; Myosin tail

pfam15035
Location:158 → 335

Rootletin; Ciliary rootlet component, centrosome cohesion

cl19219
Location:984 → 1052

DUF342; Protein of unknown function (DUF342)

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000070.7 Reference GRCm39 C57BL/6J

Range

140743948..140787927 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006538800.5 → XP_006538863.1 rootletin isoform X1

See identical proteins and their annotated locations for XP_006538863.1

Conserved Domains (3) summary

COG1196
Location:1017 → 1807

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

TIGR02168
Location:680 → 1352

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam15035
Location:84 → 261

Rootletin; Ciliary rootlet component, centrosome cohesion
XM_006538801.3 → XP_006538864.1 rootletin isoform X1

See identical proteins and their annotated locations for XP_006538864.1

Conserved Domains (3) summary

COG1196
Location:1017 → 1807

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

TIGR02168
Location:680 → 1352

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam15035
Location:84 → 261

Rootletin; Ciliary rootlet component, centrosome cohesion
XM_006538802.4 → XP_006538865.1 rootletin isoform X2

Conserved Domains (3) summary

COG1196
Location:1001 → 1791

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

TIGR02168
Location:664 → 1336

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam15035
Location:117 → 245

Rootletin; Ciliary rootlet component, centrosome cohesion
XM_036164085.1 → XP_036019978.1 rootletin isoform X3

Conserved Domains (4) summary

PRK09039
Location:1286 → 1433

PRK09039; peptidoglycan -binding protein

TIGR02168
Location:593 → 1312

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam15921
Location:88 → 641

CCDC158; Coiled-coil domain-containing protein 158

pfam15035
Location:158 → 335

Rootletin; Ciliary rootlet component, centrosome cohesion