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Cacna1b calcium voltage-gated channel subunit alpha1 B [ Rattus norvegicus (Norway rat) ]

Gene ID: 257648, updated on 22-Aug-2021

Summary

Symbol
Cacna1bprovided by RGD
Full Name
calcium voltage-gated channel subunit alpha1 Bprovided by RGD
Primary source
RGD:628852
See related
Ensembl:ENSRNOG00000004560
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
BIII
Expression
Restricted expression toward (RPKM 87.3) See more
Orthologs
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Genomic context

See Cacna1b in Genome Data Viewer
Location:
3p13
Exon count:
51
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (7380892..7546104, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (1740026..1924959, complement)

Chromosome 3 - NC_051338.1Genomic Context describing neighboring genes Neighboring gene paired box 8 Neighboring gene uncharacterized LOC102549381 Neighboring gene uncharacterized LOC120101504 Neighboring gene euchromatic histone lysine methyltransferase 1 Neighboring gene uncharacterized LOC120101505 Neighboring gene arrestin domain containing 1

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Process Evidence Code Pubs
involved_in calcium ion import IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in calcium ion import IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in calcium ion transmembrane transport IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within calcium ion transmembrane transport ISO
Inferred from Sequence Orthology
more info
 
involved_in calcium ion transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in calcium ion transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within calcium ion transport ISO
Inferred from Sequence Orthology
more info
 
involved_in chemical synaptic transmission IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in induction of synaptic vesicle exocytosis by positive regulation of presynaptic cytosolic calcium ion concentration IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within locomotory behavior ISO
Inferred from Sequence Orthology
more info
 
involved_in modulation of chemical synaptic transmission IEA
Inferred from Electronic Annotation
more info
 
involved_in modulation of chemical synaptic transmission ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within neurotransmitter secretion ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of neurotransmitter secretion IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within regulation of blood pressure ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within regulation of calcium ion transport ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within regulation of heart contraction ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of ion transmembrane transport IEA
Inferred from Electronic Annotation
more info
 
involved_in response to amyloid-beta IEA
Inferred from Electronic Annotation
more info
 
involved_in response to amyloid-beta ISO
Inferred from Sequence Orthology
more info
 
involved_in response to ethanol IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to organic cyclic compound IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within response to pain ISO
Inferred from Sequence Orthology
more info
 
involved_in response to testosterone IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in sensory perception of pain IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
is_active_in Schaffer collateral - CA1 synapse EXP
Inferred from Experiment
more info
PubMed 
located_in Schaffer collateral - CA1 synapse EXP
Inferred from Experiment
more info
PubMed 
located_in axon terminus IDA
Inferred from Direct Assay
more info
PubMed 
located_in basolateral plasma membrane ISO
Inferred from Sequence Orthology
more info
 
located_in dendrite ISO
Inferred from Sequence Orthology
more info
 
located_in dendritic shaft IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in glutamatergic synapse EXP
Inferred from Experiment
more info
PubMed 
located_in glutamatergic synapse EXP
Inferred from Experiment
more info
PubMed 
located_in membrane ISO
Inferred from Sequence Orthology
more info
 
located_in neuron projection IDA
Inferred from Direct Assay
more info
PubMed 
located_in neuron projection terminus ISO
Inferred from Sequence Orthology
more info
 
located_in neuronal cell body IDA
Inferred from Direct Assay
more info
PubMed 
located_in neuronal cell body ISO
Inferred from Sequence Orthology
more info
 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
part_of protein-containing complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in stereocilium membrane ISO
Inferred from Sequence Orthology
more info
 
part_of voltage-gated calcium channel complex IEA
Inferred from Electronic Annotation
more info
 
part_of voltage-gated calcium channel complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
voltage-dependent N-type calcium channel subunit alpha-1B
Names
brain calcium channel III
calcium channel, L type, alpha-1 polypeptide
calcium channel, voltage-dependent, N type, alpha 1B subunit
voltage gated N-type calcium channel Ca(v)2.2
voltage-dependent N-type calcium channel subunit alpha-1B-like
voltage-gated calcium channel subunit alpha Cav2.2

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)

  1. NM_001195199.1NP_001182128.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform 1

    See identical proteins and their annotated locations for NP_001182128.1

    Status: PROVISIONAL

    Source sequence(s)
    HQ008360
    UniProtKB/TrEMBL
    E1AW38
    Related
    ENSRNOP00000006162.5, ENSRNOT00000006162.6
    Conserved Domains (3) summary
    pfam00520
    Location:15061737
    Ion_trans; Ion transport protein
    pfam08763
    Location:18111885
    Ca_chan_IQ; Voltage gated calcium channel IQ domain
    pfam16905
    Location:17451809
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated
  2. NM_147141.2NP_671482.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform 2

    See identical proteins and their annotated locations for NP_671482.1

    Status: PROVISIONAL

    Source sequence(s)
    JACYVU010000115
    UniProtKB/TrEMBL
    O89089
    Related
    ENSRNOP00000044223.4, ENSRNOT00000048945.4
    Conserved Domains (3) summary
    pfam00520
    Location:14851716
    Ion_trans; Ion transport protein
    pfam08763
    Location:17901864
    Ca_chan_IQ; Voltage gated calcium channel IQ domain
    pfam16905
    Location:17241788
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

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

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051338.1 Reference mRatBN7.2 Primary Assembly

    Range
    7380892..7546104 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017591505.2XP_017446994.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform X15

  2. XM_017591500.2XP_017446989.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform X3

  3. XM_006233576.4XP_006233638.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform X8

    Conserved Domains (3) summary
    pfam00520
    Location:14891720
    Ion_trans; Ion transport protein
    pfam08763
    Location:17941868
    Ca_chan_IQ; Voltage gated calcium channel IQ domain
    pfam16905
    Location:17281792
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated
  4. XM_006233575.4XP_006233637.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform X7

    Conserved Domains (3) summary
    pfam00520
    Location:14901721
    Ion_trans; Ion transport protein
    pfam08763
    Location:17951869
    Ca_chan_IQ; Voltage gated calcium channel IQ domain
    pfam16905
    Location:17291793
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated
  5. XM_006233570.4XP_006233632.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform X2

    Conserved Domains (3) summary
    pfam00520
    Location:15101741
    Ion_trans; Ion transport protein
    pfam08763
    Location:18151889
    Ca_chan_IQ; Voltage gated calcium channel IQ domain
    pfam16905
    Location:17491813
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated
  6. XM_006233574.4XP_006233636.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform X6

    Conserved Domains (3) summary
    pfam00520
    Location:15071736
    Ion_trans; Ion transport protein
    pfam08763
    Location:18101884
    Ca_chan_IQ; Voltage gated calcium channel IQ domain
    pfam16905
    Location:17441808
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated
  7. XM_006233573.4XP_006233635.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform X5

    Conserved Domains (3) summary
    pfam00520
    Location:15071738
    Ion_trans; Ion transport protein
    pfam08763
    Location:18121886
    Ca_chan_IQ; Voltage gated calcium channel IQ domain
    pfam16905
    Location:17461810
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated
  8. XM_006233569.4XP_006233631.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform X1

    Conserved Domains (3) summary
    pfam00520
    Location:15111742
    Ion_trans; Ion transport protein
    pfam08763
    Location:18161890
    Ca_chan_IQ; Voltage gated calcium channel IQ domain
    pfam16905
    Location:17501814
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated
  9. XM_017591502.2XP_017446991.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform X12

  10. XM_039104391.1XP_038960319.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform X14

    Conserved Domains (4) summary
    PHA03307
    Location:8281130
    PHA03307; transcriptional regulator ICP4; Provisional
    pfam00520
    Location:345594
    Ion_trans; Ion transport protein
    pfam08763
    Location:668742
    Ca_chan_IQ; Voltage gated calcium channel IQ domain
    pfam16905
    Location:603656
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated
  11. XM_039104389.1XP_038960317.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform X11

    Conserved Domains (4) summary
    PHA03307
    Location:19512253
    PHA03307; transcriptional regulator ICP4; Provisional
    pfam00520
    Location:14681717
    Ion_trans; Ion transport protein
    pfam08763
    Location:17911865
    Ca_chan_IQ; Voltage gated calcium channel IQ domain
    pfam16905
    Location:17261779
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated
  12. XM_006233572.4XP_006233634.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform X4

    Conserved Domains (3) summary
    pfam00520
    Location:15111740
    Ion_trans; Ion transport protein
    pfam08763
    Location:18141888
    Ca_chan_IQ; Voltage gated calcium channel IQ domain
    pfam16905
    Location:17481812
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated
  13. XM_006233578.4XP_006233640.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform X10

    Conserved Domains (3) summary
    pfam00520
    Location:14891718
    Ion_trans; Ion transport protein
    pfam08763
    Location:17921866
    Ca_chan_IQ; Voltage gated calcium channel IQ domain
    pfam16905
    Location:17261790
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated
  14. XM_006233577.4XP_006233639.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform X9

    Conserved Domains (3) summary
    pfam00520
    Location:14901719
    Ion_trans; Ion transport protein
    pfam08763
    Location:17931867
    Ca_chan_IQ; Voltage gated calcium channel IQ domain
    pfam16905
    Location:17271791
    GPHH; Voltage-dependent L-type calcium channel, IQ-associated
  15. XM_039104390.1XP_038960318.1  voltage-dependent N-type calcium channel subunit alpha-1B isoform X13

    Conserved Domains (1) summary
    pfam00520
    Location:94367
    Ion_trans; Ion transport protein

RNA

  1. XR_005501788.1 RNA Sequence

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