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

Gene ID: 171381, updated on 4-Jan-2025

Summary

Official Symbol
Psdprovided by RGD
Official Full Name
pleckstrin and Sec7 domain containingprovided by RGD
Primary source
RGD:620297
See related
EnsemblRapid:ENSRNOG00000019435 AllianceGenome:RGD:620297
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
EFA6
Summary
Predicted to enable guanyl-nucleotide exchange factor activity. Involved in maintenance of postsynaptic density structure; neuron differentiation; and regulation of postsynapse assembly. Is active in glutamatergic synapse. Orthologous to human PSD (pleckstrin and Sec7 domain containing). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Brain (RPKM 240.5) and Uterus (RPKM 24.9) See more
Orthologs
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Genomic context

See Psd in Genome Data Viewer
Location:
1q54
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (255114703..255130151, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (245173279..245188681, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (266059331..266074774, complement)

Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134484075 Neighboring gene nuclear factor kappa B subunit 2 Neighboring gene F-box and leucine-rich repeat protein 15 Neighboring gene CUE domain containing 2

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

General gene information

Gene Ontology Provided by RGD

Component Evidence Code Pubs
located_in cell junction  
located_in cleavage furrow  
located_in cleavage furrow  
located_in cleavage furrow  
located_in dendritic spine  
located_in dendritic spine  
is_active_in glutamatergic synapse PubMed 
is_active_in glutamatergic synapse PubMed 
located_in postsynaptic density  
located_in postsynaptic density, intracellular component  
is_active_in postsynaptic density, intracellular component  
located_in postsynaptic density, intracellular component  
located_in ruffle membrane  
located_in ruffle membrane  
located_in ruffle membrane  

General protein information

Preferred Names
PH and SEC7 domain-containing protein 1
Names
exchange factor for ADP-ribosylation factor guanine nucleotide factor 6
exchange factor for ARF6 A
pleckstrin homology and SEC7 domain-containing protein 1

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_134370.2NP_599197.2  PH and SEC7 domain-containing protein 1

    See identical proteins and their annotated locations for NP_599197.2

    Status: PROVISIONAL

    Source sequence(s)
    CH473986
    UniProtKB/TrEMBL
    A6JHM0, G3V8J5
    Related
    ENSRNOP00000026378.4, ENSRNOT00000026378.6
    Conserved Domains (3) summary
    cd00171
    Location:541707
    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:752876
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain
    pfam00169
    Location:756864
    PH; PH domain

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_086019.1 Reference GRCr8

    Range
    255114703..255130151 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006231432.5XP_006231494.1  PH and SEC7 domain-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006231494.1

    UniProtKB/TrEMBL
    A6JHM0, G3V8J5
    Conserved Domains (3) summary
    cd00171
    Location:541707
    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:752876
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain
    pfam00169
    Location:756864
    PH; PH domain
  2. XM_008760396.4XP_008758618.1  PH and SEC7 domain-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_008758618.1

    UniProtKB/TrEMBL
    A6JHM0, G3V8J5
    Conserved Domains (3) summary
    cd00171
    Location:541707
    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:752876
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain
    pfam00169
    Location:756864
    PH; PH domain
  3. XM_008760394.4XP_008758616.1  PH and SEC7 domain-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_008758616.1

    UniProtKB/TrEMBL
    A6JHM0, G3V8J5
    Conserved Domains (3) summary
    cd00171
    Location:541707
    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:752876
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain
    pfam00169
    Location:756864
    PH; PH domain
  4. XM_063275990.1XP_063132060.1  PH and SEC7 domain-containing protein 1 isoform X1

    UniProtKB/TrEMBL
    A6JHM0, G3V8J5
  5. XM_063276038.1XP_063132108.1  PH and SEC7 domain-containing protein 1 isoform X3

    UniProtKB/TrEMBL
    A0A8I6GKK2
  6. XM_039089045.2XP_038944973.1  PH and SEC7 domain-containing protein 1 isoform X2

    Related
    ENSRNOP00000094064.2, ENSRNOT00000111594.2
    Conserved Domains (1) summary
    cd13295
    Location:279403
    PH_EFA6; Exchange Factor for ARF6 Pleckstrin homology (PH) domain

RNA

  1. XR_005491590.2 RNA Sequence

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