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Efcab5 EF-hand calcium binding domain 5 [ Mus musculus (house mouse) ]

Gene ID: 319634, updated on 10-Oct-2024

Summary

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Official Symbol
Efcab5provided by MGI
Official Full Name
EF-hand calcium binding domain 5provided by MGI
Primary source
MGI:MGI:2442440
See related
Ensembl:ENSMUSG00000050944 AllianceGenome:MGI:2442440
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
Also known as
4930563A03Rik
Summary
Predicted to enable calcium ion binding activity. Orthologous to human EFCAB5 (EF-hand calcium binding domain 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in testis adult (RPKM 14.7) and CNS E18 (RPKM 0.4) See more
Orthologs
human all
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Genomic context

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See Efcab5 in Genome Data Viewer
Location:
11 B5; 11 46.25 cM
Exon count:
26
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (76980236..77106926, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (77089904..77216227, complement)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_30048 Neighboring gene STARR-seq mESC enhancer starr_30049 Neighboring gene STARR-seq mESC enhancer starr_30050 Neighboring gene predicted gene, 22772 Neighboring gene nuclear speckle regulatory protein 1 Neighboring gene STARR-positive B cell enhancer ABC_E592 Neighboring gene microRNA 423 Neighboring gene ATPase, H+ transporting, lysosomal V1 subunit G1 pseudogene Neighboring gene STARR-seq mESC enhancer starr_30052 Neighboring gene upstream transcription factor 1 pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E8428 Neighboring gene STARR-positive B cell enhancer ABC_E7022 Neighboring gene STARR-positive B cell enhancer ABC_E3978 Neighboring gene slingshot protein phosphatase 2 Neighboring gene predicted gene, 24989 Neighboring gene heat shock protein 1, alpha pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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

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Related articles in PubMed

  1. Diversification of stem cell molecular repertoire by alternative splicing. Pritsker M, et al. Proc Natl Acad Sci U S A, 2005 Oct 4. PMID 16183747, Free PMC Article
  2. Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention. Zambrowicz BP, et al. Proc Natl Acad Sci U S A, 2003 Nov 25. PMID 14610273, Free PMC Article
  3. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
  4. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636
  5. RIKEN integrated sequence analysis (RISA) system--384-format sequencing pipeline with 384 multicapillary sequencer. Shibata K, et al. Genome Res, 2000 Nov. PMID 11076861, Free PMC Article

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 

General gene information

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Markers

Homology

Clone Names

  • MGC156377

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
enables molecular_function ND
No biological Data available
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
  

General protein information

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Preferred Names
EF-hand calcium-binding domain-containing protein 5

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_176965.4 → NP_795939.3  EF-hand calcium-binding domain-containing protein 5

    Status: VALIDATED

    Source sequence(s)
    AL603842, AL663066, BX321897
    Consensus CDS
    CCDS36232.1

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

  1. NC_000077.7 Reference GRCm39 C57BL/6J

    Range
    76980236..77106926 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030246082.2 → XP_030101942.1  EF-hand calcium-binding domain-containing protein 5 isoform X4

    UniProtKB/Swiss-Prot
    A0JP43, B0QZJ9, Q5NC53, Q8CBN1, Q8CDP1
    Conserved Domains (3) summary
    smart00065
    Location:1120 → 1212
    GAF; Domain present in phytochromes and cGMP-specific phosphodiesterases
    PHA03169
    Location:519 → 820
    PHA03169; hypothetical protein; Provisional
    PRK12678
    Location:406 → 600
    PRK12678; transcription termination factor Rho; Provisional

  2. XM_017314600.3 → XP_017170089.1  EF-hand calcium-binding domain-containing protein 5 isoform X9

    UniProtKB/Swiss-Prot
    A0JP43, B0QZJ9, Q5NC53, Q8CBN1, Q8CDP1
    Conserved Domains (3) summary
    PHA03169
    Location:256 → 557
    PHA03169; hypothetical protein; Provisional
    PRK12678
    Location:143 → 337
    PRK12678; transcription termination factor Rho; Provisional
    cl21515
    Location:857 → 949
    GAF; GAF domain

  3. XM_030246081.2 → XP_030101941.1  EF-hand calcium-binding domain-containing protein 5 isoform X4

    UniProtKB/Swiss-Prot
    A0JP43, B0QZJ9, Q5NC53, Q8CBN1, Q8CDP1
    Conserved Domains (3) summary
    smart00065
    Location:1120 → 1212
    GAF; Domain present in phytochromes and cGMP-specific phosphodiesterases
    PHA03169
    Location:519 → 820
    PHA03169; hypothetical protein; Provisional
    PRK12678
    Location:406 → 600
    PRK12678; transcription termination factor Rho; Provisional

  4. XM_017314599.3 → XP_017170088.1  EF-hand calcium-binding domain-containing protein 5 isoform X8

    Conserved Domains (4) summary
    smart00065
    Location:1200 → 1292
    GAF; Domain present in phytochromes and cGMP-specific phosphodiesterases
    PHA03169
    Location:599 → 900
    PHA03169; hypothetical protein; Provisional
    PRK12678
    Location:543 → 748
    PRK12678; transcription termination factor Rho; Provisional
    pfam05186
    Location:219 → 271
    Dpy-30; Dpy-30 motif

  5. XM_030246084.2 → XP_030101944.1  EF-hand calcium-binding domain-containing protein 5 isoform X7

    Conserved Domains (4) summary
    smart00065
    Location:1240 → 1332
    GAF; Domain present in phytochromes and cGMP-specific phosphodiesterases
    PHA03169
    Location:639 → 940
    PHA03169; hypothetical protein; Provisional
    PRK12678
    Location:583 → 788
    PRK12678; transcription termination factor Rho; Provisional
    pfam05186
    Location:219 → 271
    Dpy-30; Dpy-30 motif

  6. XM_030246083.2 → XP_030101943.1  EF-hand calcium-binding domain-containing protein 5 isoform X5

    UniProtKB/Swiss-Prot
    A0JP43, B0QZJ9, Q5NC53, Q8CBN1, Q8CDP1
    Conserved Domains (3) summary
    smart00065
    Location:1240 → 1332
    GAF; Domain present in phytochromes and cGMP-specific phosphodiesterases
    PHA03169
    Location:639 → 940
    PHA03169; hypothetical protein; Provisional
    PRK12678
    Location:526 → 720
    PRK12678; transcription termination factor Rho; Provisional

  7. XM_030246079.2 → XP_030101939.1  EF-hand calcium-binding domain-containing protein 5 isoform X1

    UniProtKB/Swiss-Prot
    A0JP43, B0QZJ9, Q5NC53, Q8CBN1, Q8CDP1
    Conserved Domains (3) summary
    smart00065
    Location:1240 → 1332
    GAF; Domain present in phytochromes and cGMP-specific phosphodiesterases
    PHA03169
    Location:639 → 940
    PHA03169; hypothetical protein; Provisional
    PRK12678
    Location:526 → 720
    PRK12678; transcription termination factor Rho; Provisional

  8. XM_030246080.2 → XP_030101940.1  EF-hand calcium-binding domain-containing protein 5 isoform X3

    UniProtKB/Swiss-Prot
    A0JP43, B0QZJ9, Q5NC53, Q8CBN1, Q8CDP1
    Conserved Domains (2) summary
    smart00065
    Location:1160 → 1252
    GAF; Domain present in phytochromes and cGMP-specific phosphodiesterases
    pfam03157
    Location:538 → 851
    Glutenin_hmw; High molecular weight glutenin subunit

  9. XM_017314594.2 → XP_017170083.1  EF-hand calcium-binding domain-containing protein 5 isoform X6

    UniProtKB/Swiss-Prot
    A0JP43, B0QZJ9, Q5NC53, Q8CBN1, Q8CDP1
    Conserved Domains (3) summary
    smart00065
    Location:1102 → 1194
    GAF; Domain present in phytochromes and cGMP-specific phosphodiesterases
    PHA03169
    Location:501 → 802
    PHA03169; hypothetical protein; Provisional
    PRK12678
    Location:388 → 582
    PRK12678; transcription termination factor Rho; Provisional

  10. XM_017314595.3 → XP_017170084.1  EF-hand calcium-binding domain-containing protein 5 isoform X6

    UniProtKB/Swiss-Prot
    A0JP43, B0QZJ9, Q5NC53, Q8CBN1, Q8CDP1
    Conserved Domains (3) summary
    smart00065
    Location:1102 → 1194
    GAF; Domain present in phytochromes and cGMP-specific phosphodiesterases
    PHA03169
    Location:501 → 802
    PHA03169; hypothetical protein; Provisional
    PRK12678
    Location:388 → 582
    PRK12678; transcription termination factor Rho; Provisional

  11. XM_017314601.2 → XP_017170090.1  EF-hand calcium-binding domain-containing protein 5 isoform X10

    UniProtKB/Swiss-Prot
    A0JP43, B0QZJ9, Q5NC53, Q8CBN1, Q8CDP1
    Related
    ENSMUSP00000104037.2, ENSMUST00000108400.8
    Conserved Domains (3) summary
    PHA03169
    Location:248 → 549
    PHA03169; hypothetical protein; Provisional
    PRK12678
    Location:135 → 329
    PRK12678; transcription termination factor Rho; Provisional
    cl21515
    Location:849 → 941
    GAF; GAF domain

RNA

  1. XR_003949462.2 RNA Sequence

  2. XR_004936976.1 RNA Sequence

  3. XR_003949461.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A0JP43.2 GenPept UniProtKB/Swiss-Prot:A0JP43

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