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capn3b calpain 3b [ Salmo salar (Atlantic salmon) ]

Gene ID: 100306869, updated on 8-Mar-2024

Summary

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Gene symbol
capn3b
Gene description
calpain 3b
See related
Ensembl:ENSSSAG00000074137
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Salmo salar
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Protacanthopterygii; Salmoniformes; Salmonidae; Salmoninae; Salmo
Also known as
can3
Orthologs
zebrafish all
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Genomic context

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See capn3b in Genome Data Viewer
Location:
chromosome: ssa15
Exon count:
23
Annotation release Status Assembly Chr Location
102 current Ssal_v3.1 (GCF_905237065.1) ssa15 NC_059456.1 (28651363..28684335, complement)
100 previous assembly ICSASG_v2 (GCF_000233375.1) ssa15 NC_027314.1 (23590454..23622156, complement)

Chromosome ssa15 - NC_059456.1Genomic Context describing neighboring genes Neighboring gene zinc finger protein 106-like Neighboring gene churchill domain containing 1 Neighboring gene nuclear receptor binding protein 1 Neighboring gene macoilin

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Salmo salar and Esox lucius full-length cDNA sequences reveal changes in evolutionary pressures on a post-tetraploidization genome. Leong JS, et al. BMC Genomics, 2010 Apr 30. PMID 20433749, Free PMC Article
  2. A de novo Full-Length mRNA Transcriptome Generated From Hybrid-Corrected PacBio Long-Reads Improves the Transcript Annotation and Identifies Thousands of Novel Splice Variants in Atlantic Salmon. Ramberg S, et al. Front Genet, 2021. PMID 33986770, Free PMC Article
  3. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
  4. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables calcium-dependent cysteine-type endopeptidase activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in negative regulation of apoptotic process IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in proteolysis IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
calpain-3b
Names
Calpain-3
NP_001158880.1
XP_013999381.1
XP_013999382.1

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_001165408.1 → NP_001158880.1  calpain-3b

    See identical proteins and their annotated locations for NP_001158880.1

    Status: PROVISIONAL

    Source sequence(s)
    BT058958
    UniProtKB/TrEMBL
    C0H9F2
    Related
    ENSSSAP00000099299.1, ENSSSAT00000133776.2
    Conserved Domains (5) summary
    cd15897
    Location:603 → 630
    EFh_PEF; EF-hand motif [structural motif]
    cl25352
    Location:603 → 770
    EFh_PEF; The penta-EF hand (PEF) family
    pfam00648
    Location:70 → 366
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:386 → 526
    Calpain_III; Calpain large subunit, domain III
    pfam16648
    Location:535 → 601
    Calpain_u2; Unstructured region on Calpain-3

RefSeqs of Annotated Genomes: Salmo salar Annotation Release 102 details...Open this link in a new tab

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

Reference Ssal_v3.1

Genomic

  1. NC_059456.1 Reference Ssal_v3.1

    Range
    28651363..28684335 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_014143907.2 → XP_013999382.1  calpain-3b isoform X2

    UniProtKB/TrEMBL
    A0A1S3M865
    Related
    ENSSSAP00000099312.1, ENSSSAT00000133790.2
    Conserved Domains (5) summary
    cd00051
    Location:615 → 669
    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 ...
    pfam00648
    Location:70 → 366
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:380 → 531
    Calpain_III; Calpain large subunit, domain III
    pfam13499
    Location:586 → 638
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:648 → 735
    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_014143906.2 → XP_013999381.1  calpain-3b isoform X1

    UniProtKB/TrEMBL
    A0A1S3M8U5
    Related
    ENSSSAP00000099324.2, ENSSSAT00000133802.2
    Conserved Domains (5) summary
    cd00051
    Location:646 → 700
    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 ...
    pfam00648
    Location:70 → 366
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:380 → 531
    Calpain_III; Calpain large subunit, domain III
    pfam16648
    Location:535 → 601
    Calpain_u2; Unstructured region on Calpain-3
    cl08302
    Location:614 → 671
    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
Heading Accession and Version

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