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rasgrp4 RAS guanyl releasing protein 4 [ Danio rerio (zebrafish) ]

Gene ID: 558453, updated on 2-Nov-2024

Summary

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Official Symbol
rasgrp4provided by ZNC
Official Full Name
RAS guanyl releasing protein 4provided by ZNC
Primary source
ZFIN:ZDB-GENE-050419-110
See related
Ensembl:ENSDARG00000061796 AllianceGenome:ZFIN:ZDB-GENE-050419-110
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
si:dkey-12o15.1
Summary
Predicted to enable guanyl-nucleotide exchange factor activity. Acts upstream of or within lymph vessel development. Predicted to be active in plasma membrane. Is expressed in caudal vein plexus; dorsal aorta; head; notochord; and posterior cardinal vein. Orthologous to human RASGRP4 (RAS guanyl releasing protein 4). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
all
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Genomic context

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See rasgrp4 in Genome Data Viewer
Location:
chromosome: 18
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 18 NC_007129.7 (35742838..35802484)
105 previous assembly GRCz10 (GCF_000002035.5) 18 NC_007129.6 (35761575..35821475)

Chromosome 18 - NC_007129.7Genomic Context describing neighboring genes Neighboring gene inositol-trisphosphate 3-kinase Cb Neighboring gene ryanodine receptor 1b (skeletal) Neighboring gene heterogeneous nuclear ribonucleoprotein U-like 1 Neighboring gene outer mitochondrial membrane lipid metabolism regulator OPA3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. The RAS guanyl nucleotide-releasing protein RasGRP1 is involved in lymphatic development in zebrafish. Huang H, et al. J Biol Chem, 2013 Jan 25. PMID 23184941, Free PMC Article
  2. Hematopoietic gene expression profile in zebrafish kidney marrow. Song HD, et al. Proc Natl Acad Sci U S A, 2004 Nov 16. PMID 15520368, Free PMC Article
  3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, 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

What's a GeneRIF?
  1. RasGRP1 has a critical role in lymphatic development in zebrafish
    Title: The RAS guanyl nucleotide-releasing protein RasGRP1 is involved in lymphatic development in zebrafish.
Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
enables guanyl-nucleotide exchange factor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables guanyl-nucleotide exchange factor activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in Ras protein signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within lymph vessel development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within small GTPase-mediated signal transduction IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
RAS guanyl-releasing protein 4

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_001044862.1 → NP_001038327.1  RAS guanyl-releasing protein 4

    See identical proteins and their annotated locations for NP_001038327.1

    Status: PROVISIONAL

    Source sequence(s)
    CR377223
    UniProtKB/TrEMBL
    F6P976, Q1L9A0
    Related
    ENSDARP00000082937.4, ENSDART00000088504.6
    Conserved Domains (5) summary
    cd06224
    Location:58 → 162
    REM; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal domain (RasGef_N), also called REM domain (Ras exchanger motif). This domain is common in nucleotide exchange factors for Ras-like small GTPases and is typically found immediately ...
    smart00147
    Location:194 → 430
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    pfam00130
    Location:537 → 586
    C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
    pfam13499
    Location:473 → 519
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:475 → 524
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007129.7 Reference GRCz11 Primary Assembly

    Range
    35742838..35802484
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005173660.5 → XP_005173717.1  RAS guanyl-releasing protein 4 isoform X5

    See identical proteins and their annotated locations for XP_005173717.1

    UniProtKB/TrEMBL
    A0A8M2BKX7
    Conserved Domains (5) summary
    cd06224
    Location:26 → 130
    REM; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal domain (RasGef_N), also called REM domain (Ras exchanger motif). This domain is common in nucleotide exchange factors for Ras-like small GTPases and is typically found immediately ...
    smart00147
    Location:162 → 398
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    pfam00130
    Location:505 → 554
    C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
    pfam13499
    Location:441 → 487
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:443 → 492
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

  2. XM_005173657.5 → XP_005173714.1  RAS guanyl-releasing protein 4 isoform X1

    UniProtKB/TrEMBL
    A0A8M2BLA4
    Conserved Domains (5) summary
    cd06224
    Location:58 → 162
    REM; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal domain (RasGef_N), also called REM domain (Ras exchanger motif). This domain is common in nucleotide exchange factors for Ras-like small GTPases and is typically found immediately ...
    smart00147
    Location:194 → 430
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    pfam00130
    Location:537 → 586
    C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
    pfam13499
    Location:473 → 519
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:475 → 524
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

  3. XM_005173659.5 → XP_005173716.1  RAS guanyl-releasing protein 4 isoform X4

    UniProtKB/TrEMBL
    A0A8M2BKY0
    Conserved Domains (5) summary
    cd06224
    Location:58 → 162
    REM; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal domain (RasGef_N), also called REM domain (Ras exchanger motif). This domain is common in nucleotide exchange factors for Ras-like small GTPases and is typically found immediately ...
    smart00147
    Location:194 → 430
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    pfam00130
    Location:537 → 586
    C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
    pfam13499
    Location:473 → 519
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:475 → 524
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

  4. XM_005173658.5 → XP_005173715.1  RAS guanyl-releasing protein 4 isoform X3

    UniProtKB/TrEMBL
    A0A8M2BKX1
    Conserved Domains (5) summary
    cd06224
    Location:58 → 162
    REM; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal domain (RasGef_N), also called REM domain (Ras exchanger motif). This domain is common in nucleotide exchange factors for Ras-like small GTPases and is typically found immediately ...
    smart00147
    Location:194 → 430
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    pfam00130
    Location:537 → 586
    C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
    pfam13499
    Location:473 → 519
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:475 → 524
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

  5. XM_009293782.4 → XP_009292057.1  RAS guanyl-releasing protein 4 isoform X2

    UniProtKB/TrEMBL
    A0A8M3AJR7
    Conserved Domains (5) summary
    cd06224
    Location:57 → 161
    REM; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal domain (RasGef_N), also called REM domain (Ras exchanger motif). This domain is common in nucleotide exchange factors for Ras-like small GTPases and is typically found immediately ...
    smart00147
    Location:193 → 429
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    pfam00130
    Location:536 → 585
    C1_1; Phorbol esters/diacylglycerol binding domain (C1 domain)
    pfam13499
    Location:472 → 518
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:474 → 523
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
Nucleotide Protein Strain
Heading Accession and Version

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