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Psd3 pleckstrin and Sec7 domain containing 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 306380, updated on 25-Apr-2024

Summary

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Official Symbol
Psd3provided by RGD
Official Full Name
pleckstrin and Sec7 domain containing 3provided by RGD
Primary source
RGD:1559968
See related
Ensembl:ENSRNOG00000013884 AllianceGenome:RGD:1559968
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1559968
Summary
Predicted to enable guanyl-nucleotide exchange factor activity. Predicted to be involved in regulation of ARF protein signal transduction and regulation of catalytic activity. Predicted to be located in membrane. Predicted to be active in ruffle membrane. Orthologous to human PSD3 (pleckstrin and Sec7 domain containing 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Brain (RPKM 389.2), Adrenal (RPKM 260.9) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Psd3 in Genome Data Viewer
Location:
16p14
Exon count:
32
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (26238595..26802535)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (21465643..22035846)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (23212165..23789414)

Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134482490 Neighboring gene uncharacterized LOC102551750 Neighboring gene uncharacterized LOC120097406 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene N-acetyltransferase 3 Neighboring gene high mobility group box 2, pseudogene 3 Neighboring gene N-acetyltransferase 2 Neighboring gene N-acetyltransferase 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. EFA6 activates Arf6 and participates in its targeting to the Flemming body during cytokinesis. Ueda T, et al. FEBS Lett, 2013 Jun 5. PMID 23603394
  2. Distinct spatiotemporal expression of EFA6D, a guanine nucleotide exchange factor for ARF6, among the EFA6 family in mouse brain. Sakagami H, et al. Brain Res, 2006 Jun 6. PMID 16707115
  3. Sequential Elution Interactome Analysis of the Mind Bomb 1 Ubiquitin Ligase Reveals a Novel Role in Dendritic Spine Outgrowth. Mertz J, et al. Mol Cell Proteomics, 2015 Jul. PMID 25931508, Free PMC Article
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables guanyl-nucleotide exchange factor activity ISO
Inferred from Sequence Orthology
more info
  
enables phospholipid binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in regulation of ARF protein signal transduction IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
NOT located_in cleavage furrow ISO
Inferred from Sequence Orthology
more info
  
is_active_in glutamatergic synapse ISO
Inferred from Sequence Orthology
more info
  
located_in membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in postsynapse ISO
Inferred from Sequence Orthology
more info
  
is_active_in ruffle membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in ruffle membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
PH and SEC7 domain-containing protein 3

NCBI Reference Sequences (RefSeq)

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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)

  1. NM_001419764.1 → NP_001406693.1  PH and SEC7 domain-containing protein 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000016
    UniProtKB/TrEMBL
    A0A8I5YC85, A6KFK2
    Related
    ENSRNOP00000078224.1, ENSRNOT00000113025.1

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086034.1 Reference GRCr8

    Range
    26238595..26802535
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039094961.2 → XP_038950889.1  PH and SEC7 domain-containing protein 3 isoform X12

    Conserved Domains (1) summary
    cd00171
    Location:830 → 973
    Sec7; Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor ...

  2. XM_006253039.5 → XP_006253101.1  PH and SEC7 domain-containing protein 3 isoform X3

    See identical proteins and their annotated locations for XP_006253101.1

    UniProtKB/TrEMBL
    A0A8I5Y8H6
    Related
    ENSRNOP00000078222.1
    Conserved Domains (3) summary
    cd00171
    Location:830 → 984
    Sec7; Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor ...
    cd13295
    Location:1029 → 1154
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain
    pfam00169
    Location:1034 → 1142
    PH; PH domain

  3. XM_063275383.1 → XP_063131453.1  PH and SEC7 domain-containing protein 3 isoform X4

  4. XM_063275393.1 → XP_063131463.1  PH and SEC7 domain-containing protein 3 isoform X14

  5. XM_063275392.1 → XP_063131462.1  PH and SEC7 domain-containing protein 3 isoform X13

  6. XM_063275384.1 → XP_063131454.1  PH and SEC7 domain-containing protein 3 isoform X5

  7. XM_063275381.1 → XP_063131451.1  PH and SEC7 domain-containing protein 3 isoform X1

  8. XM_063275382.1 → XP_063131452.1  PH and SEC7 domain-containing protein 3 isoform X2

  9. XM_063275390.1 → XP_063131460.1  PH and SEC7 domain-containing protein 3 isoform X9

  10. XM_063275391.1 → XP_063131461.1  PH and SEC7 domain-containing protein 3 isoform X10

  11. XM_063275386.1 → XP_063131456.1  PH and SEC7 domain-containing protein 3 isoform X6

  12. XM_063275389.1 → XP_063131459.1  PH and SEC7 domain-containing protein 3 isoform X8

  13. XM_063275387.1 → XP_063131457.1  PH and SEC7 domain-containing protein 3 isoform X6

  14. XM_063275388.1 → XP_063131458.1  PH and SEC7 domain-containing protein 3 isoform X8

  15. XM_039094958.2 → XP_038950886.1  PH and SEC7 domain-containing protein 3 isoform X11

    UniProtKB/TrEMBL
    D3ZFY7
    Conserved Domains (2) summary
    cd00171
    Location:512 → 667
    Sec7; Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor ...
    cd13295
    Location:712 → 837
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain

  16. XM_039094959.2 → XP_038950887.1  PH and SEC7 domain-containing protein 3 isoform X11

    UniProtKB/TrEMBL
    D3ZFY7
    Related
    ENSRNOP00000062924.4
    Conserved Domains (2) summary
    cd00171
    Location:512 → 667
    Sec7; Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor ...
    cd13295
    Location:712 → 837
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain

  17. XM_063275394.1 → XP_063131464.1  PH and SEC7 domain-containing protein 3 isoform X15

  18. XM_039094954.2 → XP_038950882.1  PH and SEC7 domain-containing protein 3 isoform X7

    UniProtKB/TrEMBL
    A0A8I6A5C3
    Related
    ENSRNOP00000087887.1
    Conserved Domains (2) summary
    cd00171
    Location:544 → 699
    Sec7; Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor ...
    cd13295
    Location:744 → 869
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain

  19. XM_063275398.1 → XP_063131468.1  PH and SEC7 domain-containing protein 3 isoform X20

  20. XM_063275399.1 → XP_063131469.1  PH and SEC7 domain-containing protein 3 isoform X21

  21. XM_063275396.1 → XP_063131466.1  PH and SEC7 domain-containing protein 3 isoform X18

  22. XM_063275406.1 → XP_063131476.1  PH and SEC7 domain-containing protein 3 isoform X28

  23. XM_063275397.1 → XP_063131467.1  PH and SEC7 domain-containing protein 3 isoform X19

  24. XM_006253047.5 → XP_006253109.1  PH and SEC7 domain-containing protein 3 isoform X16

    See identical proteins and their annotated locations for XP_006253109.1

    UniProtKB/TrEMBL
    A0A8I6ANS5, D4A404
    Related
    ENSRNOP00000097864.1
    Conserved Domains (3) summary
    cd00171
    Location:51 → 205
    Sec7; Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor ...
    cd13295
    Location:250 → 375
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain
    pfam00169
    Location:255 → 363
    PH; PH domain

  25. XM_063275395.1 → XP_063131465.1  PH and SEC7 domain-containing protein 3 isoform X17

  26. XM_063275404.1 → XP_063131474.1  PH and SEC7 domain-containing protein 3 isoform X26

  27. XM_063275405.1 → XP_063131475.1  PH and SEC7 domain-containing protein 3 isoform X27

  28. XM_063275403.1 → XP_063131473.1  PH and SEC7 domain-containing protein 3 isoform X25

  29. XM_063275402.1 → XP_063131472.1  PH and SEC7 domain-containing protein 3 isoform X24

  30. XM_063275401.1 → XP_063131471.1  PH and SEC7 domain-containing protein 3 isoform X23

  31. XM_006253053.5 → XP_006253115.1  PH and SEC7 domain-containing protein 3 isoform X22

    See identical proteins and their annotated locations for XP_006253115.1

    Conserved Domains (2) summary
    cd13295
    Location:109 → 234
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain
    pfam00169
    Location:114 → 222
    PH; PH domain

RNA

  1. XR_010058293.1 RNA Sequence

  2. XR_010058294.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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