Calb1 calbindin 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Calb1provided by RGD
Official Full Name: calbindin 1provided by RGD
Primary source: RGD:69340
See related: EnsemblRapid:ENSRNOG00000007456 AllianceGenome:RGD:69340
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: CaBP28K
Summary: Enables calcium ion binding activity. Involved in several processes, including cochlea development; regulation of synaptic plasticity; and response to auditory stimulus. Located in axon; cuticular plate; and stereocilium. Is active in calyx of Held; postsynaptic cytosol; and presynaptic cytosol. Biomarker of alcohol use disorder and bilirubin metabolic disorder. Orthologous to human CALB1 (calbindin 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Kidney (RPKM 1907.8) and Brain (RPKM 704.1) See more
Orthologs: human mouse all
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Genomic context

Location:: 5q13

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (34172612..34199555)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (29375624..29402532)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (29538380..29562774)

Chromosome 5 - NC_086023.1 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 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?

Expression of calbindin and calretinin in the dorsomedial and ventromedial hypothalamic nuclei during aging.
Title: Expression of calbindin and calretinin in the dorsomedial and ventromedial hypothalamic nuclei during aging.
Calbindin D-28K does not appear to associate with any particular neuronal phenotype in the spinal dorsal horn, which may reflect that fact that most morphological types can be excitatory or inhibitory Its expression and distribution is unaffected by chronic constriction injury and increased excitatory synaptic drive to Cal+ neurons is unlikely to play a role in chronic constriction injury-induced central sensitization
Title: Calbindin-D-28K like immunoreactivity in superficial dorsal horn neurons and effects of sciatic chronic constriction injury.
calbindin1 in rat primary islet cells reduced glucose-stimulated insulin secretion (GSIS), and the effect of BMP4 on GSIS was lost in islets from calbindin1 (Calb1) knockout mice
Title: Bone morphogenetic protein 4 inhibits insulin secretion from rodent beta cells through regulation of calbindin1 expression and reduced voltage-dependent calcium currents.
Calbindin and parvalbumin expression is lowest 3 weeks after streptozotocin administration to induce type 1 diabetes in rats. These deficits lead to disturbances in calcium homeostasis.
Title: Time-dependent changes of calbindin D-28K and parvalbumin immunoreactivity in the hippocampus of rats with streptozotocin-induced type 1 diabetes.
Negative calcium balance in aged ovariectomizrd animals is associated with downregulation of CaBP28K.
Title: Estrogen deficiency-induced Ca balance impairment is associated with decrease in expression of epithelial Ca transport proteins in aged female rats.
Chronic high-salt diet increases expression of calbindin-D28k in renal tubules.
Title: Effects of a high-sodium diet on renal tubule Ca2+ transporter and claudin expression in Wistar-Kyoto rats.
The results obtained indicate that neocortical cells of adult rats submitted to early SI show a significant increase in the number of CB-ir neurons per cortical field, while selegiline treatment significantly reduces this parameter.
Title: Selegiline (deprenyl) decreases calbindin-D28k expression in cortical neurons of rats socially deprived during the post-weaning period.
The stress of maternal deprivation has a significant effect on calretinin and calbindin expression in both male and female rats, but affects glucocorticoid receptor levels only in males.
Title: The effect of different maternal deprivation paradigms on the expression of hippocampal glucocorticoid receptors, calretinin and calbindin-D28k in male and female adolescent rats.
Studied the general pattern of calretinin (CR), parvalbumin (PV) and calbindin (CB) immunoreactivity as well as morphological features and density of CR and PV immunoreactive (CR+, PV+) interneurons in the rat perirhinal cortex (PRC) and found the PRC possesses specific interneuronal equipment with unusually high proportion of CR+ interneurons.
Title: Calretinin, parvalbumin and calbindin immunoreactive interneurons in perirhinal cortex and temporal area Te3V of the rat brain: qualitative and quantitative analyses.
midbrain dopamine release was efficiently controlled by a native fast calcium buffer, calbindin-D28k
Title: Calbindin controls release probability in ventral tegmental area dopamine neurons.

Submit: New GeneRIF Correction See all GeneRIFs (37)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

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	IDA Inferred from Direct Assay more info	PubMed
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables calcium ion binding	ISO Inferred from Sequence Orthology more info
enables calcium ion binding	TAS Traceable Author Statement more info	PubMed
enables calcium ion binding involved in regulation of postsynaptic cytosolic calcium ion concentration	ISO Inferred from Sequence Orthology more info
enables calcium ion binding involved in regulation of presynaptic cytosolic calcium ion concentration	ISO Inferred from Sequence Orthology more info
enables vitamin D binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in cochlea development	IEP Inferred from Expression Pattern more info	PubMed
involved_in learning or memory	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within locomotory behavior	ISO Inferred from Sequence Orthology more info
involved_in long-term memory	ISO Inferred from Sequence Orthology more info
involved_in metanephric collecting duct development	ISO Inferred from Sequence Orthology more info
involved_in metanephric connecting tubule development	ISO Inferred from Sequence Orthology more info
involved_in metanephric distal convoluted tubule development	ISO Inferred from Sequence Orthology more info
involved_in metanephric part of ureteric bud development	ISO Inferred from Sequence Orthology more info
involved_in regulation of long-term synaptic potentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of long-term synaptic potentiation	ISO Inferred from Sequence Orthology more info
involved_in regulation of postsynaptic cytosolic calcium ion concentration	IEA Inferred from Electronic Annotation more info
involved_in regulation of presynaptic cytosolic calcium ion concentration	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of synaptic plasticity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to auditory stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in retina development in camera-type eye	ISO Inferred from Sequence Orthology more info
involved_in retina layer formation	ISO Inferred from Sequence Orthology more info
involved_in short-term memory	ISO Inferred from Sequence Orthology more info
involved_in vitamin D metabolic process	TAS Traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
is_active_in GABA-ergic synapse	ISO Inferred from Sequence Orthology more info
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in axon	ISO Inferred from Sequence Orthology more info
is_active_in calyx of Held	IDA Inferred from Direct Assay more info	PubMed
located_in cuticular plate	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in dendrite	IBA Inferred from Biological aspect of Ancestor more info
located_in dendrite	ISO Inferred from Sequence Orthology more info
is_active_in dendritic spine	IBA Inferred from Biological aspect of Ancestor more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
is_active_in hippocampal mossy fiber to CA3 synapse	ISO Inferred from Sequence Orthology more info
located_in neuron projection	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	ISO Inferred from Sequence Orthology 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
is_active_in postsynapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynapse	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in postsynaptic cytosol	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynaptic cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in stereocilium	IDA Inferred from Direct Assay more info	PubMed
is_active_in synapse	IBA Inferred from Biological aspect of Ancestor more info
located_in synapse	ISO Inferred from Sequence Orthology more info
located_in terminal bouton	HDA more info	PubMed
is_active_in terminal bouton	IBA Inferred from Biological aspect of Ancestor more info
located_in terminal bouton	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: calbindin

Names: D-28K; calbindin 1, 28 kD; calbindin D28; cerebellar Ca-binding protein, spot 35 protein; spot 35 protein; vitamin D-dependent calcium-binding protein, avian-type

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_031984.2 → NP_114190.1 calbindin

See identical proteins and their annotated locations for NP_114190.1

Status: VALIDATED

Source sequence(s)

BC081764, CK479935

UniProtKB/Swiss-Prot

P07171

UniProtKB/TrEMBL

A0A8I6AA30, A6IIA7

Related

ENSRNOP00000010845.3, ENSRNOT00000010845.6

Conserved Domains (3) summary

cd00051
Location:102 → 171

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 ...

pfam13499
Location:104 → 171

EF-hand_7; EF-hand domain pair

cl08302
Location:15 → 82

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_086023.1 Reference GRCr8

Range

34172612..34199555

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039110854.2 → XP_038966782.1 calbindin isoform X1

UniProtKB/TrEMBL

A0A8I6AA30, A0A8I6GCE9

Related

ENSRNOP00000085057.1, ENSRNOT00000119300.2

Conserved Domains (2) summary

cd15902
Location:16 → 44

EFh_HEF; EF-hand motif [structural motif]

cl23634
Location:16 → 232

EFh_HEF; EF-hand, calcium binding motif, found in the hexa-EF hand proteins family