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Kcnip3 Kv channel interacting protein 3, calsenilin [ Mus musculus (house mouse) ]

Gene ID: 56461, updated on 10-Oct-2024

Summary

Official Symbol
Kcnip3provided by MGI
Official Full Name
Kv channel interacting protein 3, calsenilinprovided by MGI
Primary source
MGI:MGI:1929258
See related
Ensembl:ENSMUSG00000079056 AllianceGenome:MGI:1929258
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
Csen; DREAM; KChIP3; 4933407H12Rik
Summary
Enables several functions, including DNA-binding transcription repressor activity, RNA polymerase II-specific; metal ion binding activity; and transcription cis-regulatory region binding activity. Involved in protein localization to plasma membrane; regulation of potassium ion transmembrane transport; and response to magnesium ion. Acts upstream of or within several processes, including behavioral response to pain; negative regulation of transcription by RNA polymerase II; and sensory perception of pain. Located in cytosol and nucleus. Part of protein-DNA complex and voltage-gated potassium channel complex. Is expressed in several structures, including brain; genitourinary system; hemolymphoid system gland; liver; and spinal cord. Orthologous to human KCNIP3 (potassium voltage-gated channel interacting protein 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in cortex adult (RPKM 10.9), frontal lobe adult (RPKM 9.3) and 12 other tissues See more
Orthologs
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Genomic context

See Kcnip3 in Genome Data Viewer
Location:
2 F1; 2 62.02 cM
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (127298418..127364014, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (127456498..127522094, complement)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene glycerol-3-phosphate acyltransferase 2, mitochondrial Neighboring gene fumarylacetoacetate hydrolase domain containing 2A Neighboring gene STARR-positive B cell enhancer mm9_chr2:127279437-127279737 Neighboring gene predicted gene, 35478 Neighboring gene predicted gene, 54151 Neighboring gene prominin 2 Neighboring gene STARR-positive B cell enhancer mm9_chr2:127385126-127385426 Neighboring gene predicted gene 14229

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables DNA-binding transcription repressor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
 
enables DNA-binding transcription repressor activity, RNA polymerase II-specific IDA
Inferred from Direct Assay
more info
PubMed 
enables DNA-binding transcription repressor activity, RNA polymerase II-specific IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables calcium ion binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
 
enables calcium ion binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables calcium ion binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables calcium-dependent protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables core promoter sequence-specific DNA binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables magnesium ion binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables magnesium ion binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables potassium channel activity IEA
Inferred from Electronic Annotation
more info
 
enables potassium channel regulator activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables potassium channel regulator activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables potassium channel regulator activity ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein homodimerization activity EXP
Inferred from Experiment
more info
PubMed 
enables sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables transmembrane transporter binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in apoptotic process IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within behavioral response to pain IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in intracellular protein transport ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of DNA-templated transcription TAS
Traceable Author Statement
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in potassium ion transmembrane transport IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within potassium ion transport TAS
Traceable Author Statement
more info
PubMed 
involved_in protein localization to plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within regulation of neuron apoptotic process IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of potassium ion transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in regulation of potassium ion transmembrane transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in response to magnesium ion IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within response to pain IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within sensory perception of pain IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in Golgi apparatus IEA
Inferred from Electronic Annotation
more info
 
located_in axon ISO
Inferred from Sequence Orthology
more info
 
located_in axon terminus ISO
Inferred from Sequence Orthology
more info
 
located_in cytosol IDA
Inferred from Direct Assay
more info
PubMed 
located_in dendrite ISO
Inferred from Sequence Orthology
more info
 
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
part_of protein-DNA complex IMP
Inferred from Mutant Phenotype
more info
PubMed 
part_of protein-DNA complex ISO
Inferred from Sequence Orthology
more info
 
part_of voltage-gated potassium channel complex IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of voltage-gated potassium channel complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
calsenilin
Names
A-type potassium channel modulatory protein 3
DRE-antagonist modulator
calsenilin, presenilin binding protein, EF hand transcription factor
calsenilin/KChIP3 T+
calsenilin/KChIP3 T-
downstream regulatory element antagonist T+
downstream regulatory element antagonist T-
kv channel-interacting protein 3
potassium channel interacting 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_001111331.1NP_001104801.1  calsenilin isoform b

    See identical proteins and their annotated locations for NP_001104801.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two 5' exons but contains an alternate 5' terminal exon, and it thus differs in the 5' UTR and 5' coding region, compared to variant 1. The encoded isoform (b) has a distinct N-terminus and is shorter than isoform a.
    Source sequence(s)
    BC057329, DQ148500
    Consensus CDS
    CCDS50703.1
    UniProtKB/TrEMBL
    Q3TMU2, Q3YAA9
    Related
    ENSMUSP00000085896.6, ENSMUST00000088538.6
    Conserved Domains (1) summary
    COG5126
    Location:55219
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
  2. NM_001291005.1NP_001277934.1  calsenilin isoform c

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site that results in translation initiation at an alternate start codon, compared to variant 1. The encoded isoform (c) has a distinct N-terminus and is longer than isoform a.
    Source sequence(s)
    AF287732, BC057329, CJ148267
    Consensus CDS
    CCDS71139.1
    UniProtKB/TrEMBL
    A2AHT3
    Related
    ENSMUSP00000028850.9, ENSMUST00000028850.15
    Conserved Domains (2) summary
    COG5126
    Location:109273
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:194265
    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. NM_019789.4NP_062763.2  calsenilin isoform a

    See identical proteins and their annotated locations for NP_062763.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes isoform a.
    Source sequence(s)
    AF287732, BC057329, CJ148267
    Consensus CDS
    CCDS16703.1
    UniProtKB/Swiss-Prot
    Q924L0, Q99PH9, Q99PI0, Q99PI2, Q99PI3, Q9JHZ5, Q9QXT8
    UniProtKB/TrEMBL
    Q3TMU2, Q3YAB0
    Related
    ENSMUSP00000099504.5, ENSMUST00000103215.11
    Conserved Domains (1) summary
    COG5126
    Location:81245
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]

RNA

  1. NR_110989.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains an alternate 5' terminal exon and uses an alternate splice site in an internal exon, compared to variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
    Source sequence(s)
    AK016721, BC057329

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_000068.8 Reference GRCm39 C57BL/6J

    Range
    127298418..127364014 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011239710.4XP_011238012.1  calsenilin isoform X1

    UniProtKB/TrEMBL
    A0AAQ4VMS2, Q3TMU2
    Related
    ENSMUSP00000159973.1, ENSMUST00000249876.1
    Conserved Domains (1) summary
    COG5126
    Location:61225
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]