Kcnip3 potassium voltage-gated channel interacting protein 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Kcnip3provided by RGD
Official Full Name: potassium voltage-gated channel interacting protein 3provided by RGD
Primary source: RGD:70888
See related: Ensembl:ENSRNOG00000014152 AllianceGenome:RGD:70888
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: Csen; Dream; rKChIP3
Summary: Enables potassium channel regulator activity; sequence-specific DNA binding activity; and transmembrane transporter binding activity. Involved in intracellular protein transport. Located in axon terminus; dendrite; and nucleus. Part of protein-DNA complex. Orthologous to human KCNIP3 (potassium voltage-gated channel interacting protein 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 54.9), Lung (RPKM 15.8) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q36

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (135130331..135196031, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (114677027..114742923, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (120023062..120087650, complement)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Ifenprodil Reduced Expression of Activated Microglia, BDNF and DREAM Proteins in the Spinal Cord Following Formalin Injection During the Early Stage of Painful Diabetic Neuropathy in Rats.
Title: Ifenprodil Reduced Expression of Activated Microglia, BDNF and DREAM Proteins in the Spinal Cord Following Formalin Injection During the Early Stage of Painful Diabetic Neuropathy in Rats.
HDAC4 and HDAC5 form a complex with DREAM that epigenetically down-regulates NCX3 gene and its pharmacological inhibition reduces neuronal stroke damage.
Title: HDAC4 and HDAC5 form a complex with DREAM that epigenetically down-regulates NCX3 gene and its pharmacological inhibition reduces neuronal stroke damage.
NF-kB signal pathway promoted the expression of DREAM gene.
Title: The function of DREAM gene mediated by NF-kB signal pathway in the pathogenesis of osteosarcoma.
The KChIP3-TRPV1 interaction reduces the surface localization of TRPV1 and thus alleviates heat hyperalgesia and gait alterations induced by peripheral inflammation
Title: KChIP3 N-Terminal 31-50 Fragment Mediates Its Association with TRPV1 and Alleviates Inflammatory Hyperalgesia in Rats.
DREAM expression and REM sleep deprivation, as well as sleep recovery, are linked which may indicate potential involvement of DREAM in REM sleep-induced changes in gene expression, specifically in nociceptive processing.
Title: REM sleep deprivation induces changes of down regulatory antagonist modulator (DREAM) expression in the ventrobasal thalamic nuclei of sprague-dawley rats.
This study demonistrared that the expression and function of KCHIP3 channels in neurons of the rat bed nucleus of the stria terminalis.
Title: Distribution and functional expression of Kv4 family α subunits and associated KChIP β subunits in the bed nucleus of the stria terminalis.
The expression of calsenilin was found to be increased in brain following experimental ischemic stroke.
Title: Calsenilin contributes to neuronal cell death in ischemic stroke.
expression of DREAM was increased in the spinal cord after formalin-induced pain; nitric oxide may play an important role in the DREAM pathway modulation of inflammatory pain
Title: Nitric oxide modulated the expression of DREAM/calsenilin/KChIP3 in inflammatory pain of rats.
This study demonstrated that the KCNIP proteins localize differently when over-expressed in primary cortical neurons.
Title: Subcellular localization and transcription regulatory potency of KCNIP/Calsenilin/DREAM/KChIP proteins in cultured primary cortical neurons do not provide support for their role in CRE-dependent gene expression.
these data suggest an altered expression and function of KChIP3 after streptozotocin induced hyperglycemia that might help explain some pathological alterations in early diabetic retinopathy.
Title: Hyperglycemia induces early upregulation of the calcium sensor KChIP3/DREAM/calsenilin in the rat retina.

Submit: New GeneRIF Correction See all GeneRIFs (23)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH141054 (e-PCR)
- UniSTS:223054

RH141073 (e-PCR)
- UniSTS:223054

MARC_16027-16028:1017085829:1 (e-PCR)
- UniSTS:267938

Kcnip3 (e-PCR), detects polymorphism
- UniSTS:478921

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
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	IEA Inferred from Electronic Annotation more info
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	IEA Inferred from Electronic Annotation more info
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	ISO Inferred from Sequence Orthology more info
enables calcium-dependent protein binding	ISO Inferred from Sequence Orthology more info
enables core promoter sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables magnesium ion binding	ISO Inferred from Sequence Orthology more info
enables molecular function activator activity	ISO Inferred from Sequence Orthology more info
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	IDA Inferred from Direct Assay 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 sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables transmembrane transporter binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in apoptotic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within behavioral response to pain	ISO Inferred from Sequence Orthology more info
involved_in intracellular protein transport	IMP Inferred from Mutant Phenotype 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	ISO Inferred from Sequence Orthology more info
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
involved_in protein localization to plasma membrane	ISO Inferred from Sequence Orthology more info
involved_in protein localization to plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
involved_in regulation of potassium ion transmembrane transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to magnesium ion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to pain	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within sensory perception of pain	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in axon terminus	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISS Inferred from Sequence or Structural Similarity more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
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	ISO Inferred from Sequence Orthology more info
part_of protein-DNA complex	IDA Inferred from Direct Assay 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	ISO Inferred from Sequence Orthology more info
part_of voltage-gated potassium channel complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: calsenilin

Names: A-type potassium channel modulating protein 3; A-type potassium channel modulatory protein 3; DRE-antagonist modulator; KChIP3; Kv channel interacting protein 3, calsenilin; calsenilin, presenilin-binding protein, EF hand transcription fa; calsenilin, presenilin-binding protein, EF hand transcription factor; downstream regulatory element-antagonist modulator; kv 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)

NM_032462.2 → NP_115851.1 calsenilin

See identical proteins and their annotated locations for NP_115851.1

Status: PROVISIONAL

Source sequence(s)

AF297118

UniProtKB/TrEMBL

A0A140TAG1

Related

ENSRNOP00000047927.4, ENSRNOT00000047158.5

Conserved Domains (2) summary

COG5126
Location:81 → 245

FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]

cd00051
Location:166 → 237

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_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086021.1 Reference GRCr8

Range

135130331..135196031 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017592027.3 → XP_017447516.1 calsenilin isoform X2

UniProtKB/TrEMBL

A0A0G2K6M5, A0A140TAG1

Related

ENSRNOP00000073871.2
XM_039105819.2 → XP_038961747.1 calsenilin isoform X1

UniProtKB/TrEMBL

A0A8L2R519

Related

ENSRNOP00000071572.2

Conserved Domains (1) summary

COG5126
Location:109 → 273

FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
XM_006234990.5 → XP_006235052.1 calsenilin isoform X3

See identical proteins and their annotated locations for XP_006235052.1

UniProtKB/TrEMBL

A0A8L2QQE1

Related

ENSRNOP00000052766.4

Conserved Domains (1) summary

COG5126
Location:55 → 219

FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]