Cib2 calcium and integrin binding family member 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cib2provided by RGD
Official Full Name: calcium and integrin binding family member 2provided by RGD
Primary source: RGD:1308718
See related: AllianceGenome:RGD:1308718
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
Summary: Predicted to enable integrin binding activity; metal ion binding activity; and protein homodimerization activity. Predicted to be involved in cellular response to ATP; photoreceptor cell maintenance; and positive regulation of cytosolic calcium ion concentration. Predicted to be located in several cellular components, including cuticular plate; muscle tendon junction; and sarcolemma. Human ortholog(s) of this gene implicated in Usher syndrome type 1J and autosomal recessive nonsyndromic deafness 48. Orthologous to human CIB2 (calcium and integrin binding family member 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Muscle (RPKM 91.0), Brain (RPKM 68.3) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q24

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (63826410..63843301, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (54930265..54947157, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (59123078..59139946, complement)

Chromosome 8 - NC_086026.1 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?

CaMy2 binds Ca2+ and exhibits Ca2+/conformational switch. Moreover, CaMy2 undergoes N-myristoylation without Ca2+/myristoyl switch, is membrane-associated and localizes in neurons together with Golgi apparatus and dendrite markers.
Title: Biochemical characterization and expression analysis of a novel EF-hand Ca2+ binding protein calmyrin2 (Cib2) in brain indicates its function in NMDA receptor mediated Ca2+ signaling.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium ion binding	IBA Inferred from Biological aspect of Ancestor more info
enables calcium ion binding	ISO Inferred from Sequence Orthology more info
enables calcium ion binding	ISS Inferred from Sequence or Structural Similarity more info
enables integrin binding	ISO Inferred from Sequence Orthology more info
enables magnesium ion binding	IBA Inferred from Biological aspect of Ancestor more info
enables magnesium ion binding	ISO Inferred from Sequence Orthology more info
enables magnesium ion binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein-containing complex binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in calcium ion homeostasis	IBA Inferred from Biological aspect of Ancestor more info
involved_in calcium ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in calcium ion homeostasis	ISS Inferred from Sequence or Structural Similarity more info
involved_in cellular response to ATP	ISO Inferred from Sequence Orthology more info
involved_in cellular response to ATP	ISS Inferred from Sequence or Structural Similarity more info
involved_in photoreceptor cell maintenance	ISO Inferred from Sequence Orthology more info
involved_in photoreceptor cell maintenance	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of cytosolic calcium ion concentration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cytosolic calcium ion concentration	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
is_active_in cell periphery	IBA Inferred from Biological aspect of Ancestor more info
located_in cuticular plate	ISO Inferred from Sequence Orthology more info
located_in cuticular plate	ISS Inferred from Sequence or Structural Similarity more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in cytosol	TAS Traceable Author Statement more info
located_in muscle tendon junction	ISO Inferred from Sequence Orthology more info
located_in neuromuscular junction	ISO Inferred from Sequence Orthology more info
located_in photoreceptor inner segment	ISO Inferred from Sequence Orthology more info
located_in photoreceptor inner segment	ISS Inferred from Sequence or Structural Similarity more info
located_in photoreceptor outer segment	ISO Inferred from Sequence Orthology more info
located_in photoreceptor outer segment	ISS Inferred from Sequence or Structural Similarity more info
located_in sarcolemma	ISO Inferred from Sequence Orthology more info
is_active_in stereocilium	IBA Inferred from Biological aspect of Ancestor more info
located_in stereocilium	ISO Inferred from Sequence Orthology more info
located_in stereocilium	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: calcium and integrin-binding family member 2

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_001015010.1 → NP_001015010.1 calcium and integrin-binding family member 2

See identical proteins and their annotated locations for NP_001015010.1

Status: PROVISIONAL

Source sequence(s)

BC092630

UniProtKB/Swiss-Prot

Q568Z7

UniProtKB/TrEMBL

A6J4L5

Conserved Domains (1) summary

COG5126
Location:68 → 178

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

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_086026.1 Reference GRCr8

Range

63826410..63843301 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006243071.5 → XP_006243133.1 calcium and integrin-binding family member 2 isoform X1

See identical proteins and their annotated locations for XP_006243133.1

UniProtKB/TrEMBL

A6J4L6

Conserved Domains (1) summary

COG5126
Location:25 → 135

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