Calb1 (calbindin 1) - Rat Genome Database

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Gene: Calb1 (calbindin 1) Ictidomys tridecemlineatus
Analyze
Symbol: Calb1
Name: calbindin 1
RGD ID: 12725932
Description: ENCODES a protein that exhibits calcium ion binding (ortholog); INVOLVED IN cochlea development (ortholog); learning or memory (ortholog); regulation of synaptic plasticity (ortholog); PARTICIPATES IN calcium/calcium-mediated signaling pathway; ASSOCIATED WITH alcohol use disorder (ortholog); bilirubin metabolic disorder (ortholog); gestational diabetes (ortholog); FOUND IN calyx of Held (ortholog); cuticular plate (ortholog); neuronal cell body (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: calbindin
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530343,910,718 - 43,934,361 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365443,858,344 - 3,882,106 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365443,858,344 - 3,881,985 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Calb1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530343,910,718 - 43,934,361 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365443,858,344 - 3,882,106 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365443,858,344 - 3,881,985 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CALB1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38890,058,608 - 90,082,879 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl890,058,608 - 90,095,475 (-)EnsemblGRCh38hg38GRCh38
GRCh37891,070,836 - 91,095,107 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36891,140,014 - 91,164,283 (-)NCBINCBI36Build 36hg18NCBI36
Build 34891,140,013 - 91,164,283NCBI
Celera887,265,760 - 87,290,030 (-)NCBICelera
Cytogenetic Map8q21.3ENTREZGENE
HuRef886,281,630 - 86,305,899 (-)NCBIHuRef
CHM1_1891,111,762 - 91,136,036 (-)NCBICHM1_1
T2T-CHM13v2.0891,182,279 - 91,206,531 (-)NCBIT2T-CHM13v2.0
Calb1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39415,881,264 - 15,906,709 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl415,881,264 - 15,908,064 (+)EnsemblGRCm39 Ensembl
GRCm38415,881,264 - 15,906,709 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl415,881,264 - 15,908,064 (+)EnsemblGRCm38mm10GRCm38
MGSCv37415,808,411 - 15,833,856 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36415,808,411 - 15,833,795 (+)NCBIMGSCv36mm8
Celera415,684,341 - 15,710,097 (+)NCBICelera
Cytogenetic Map4A2NCBI
cM Map46.66NCBI
Calb1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8534,172,612 - 34,199,555 (+)NCBIGRCr8
mRatBN7.2529,375,624 - 29,402,532 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl529,375,642 - 29,402,431 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx531,531,877 - 31,556,210 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0533,124,545 - 33,148,878 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0533,084,720 - 33,109,051 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0529,538,380 - 29,562,774 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl529,538,380 - 29,562,773 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0534,217,930 - 34,242,324 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4530,455,665 - 30,480,122 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1530,455,683 - 30,480,116 (+)NCBI
Celera528,581,243 - 28,605,619 (+)NCBICelera
Cytogenetic Map5q13NCBI
Calb1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554176,942,900 - 6,969,502 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554176,944,300 - 6,969,341 (-)NCBIChiLan1.0ChiLan1.0
CALB1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v27107,454,698 - 107,478,231 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1882,994,347 - 83,017,871 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0886,747,702 - 86,771,995 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1888,699,532 - 88,723,814 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl888,699,532 - 88,723,814 (-)Ensemblpanpan1.1panPan2
CALB1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12935,551,836 - 35,572,985 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2935,552,436 - 35,572,925 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2935,704,729 - 35,725,872 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02935,749,189 - 35,770,350 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2935,748,436 - 35,770,338 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12935,736,414 - 35,757,553 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02935,754,732 - 35,775,854 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02936,190,515 - 36,211,601 (-)NCBIUU_Cfam_GSD_1.0
CALB1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl446,701,045 - 46,725,197 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1446,701,276 - 46,723,548 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2451,177,484 - 51,199,916 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CALB1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1885,135,956 - 85,160,806 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl885,137,528 - 85,160,855 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603955,715,695 - 55,740,540 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Calb1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247441,929,988 - 1,963,464 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247441,930,085 - 1,960,950 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005328639 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010000362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSSTOT00000009161   ⟹   ENSSTOP00000008214
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365443,858,344 - 3,882,106 (-)Ensembl
RefSeq Acc Id: XM_005328639   ⟹   XP_005328696
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440530343,910,718 - 43,934,361 (+)NCBI
SpeTri2.0NW_0049365443,858,344 - 3,881,985 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005328696 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000008214.2
GenBank Protein KAG3273920 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_005328696   ⟸   XM_005328639
- UniProtKB: I3MD14 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSSTOP00000008214   ⟸   ENSSTOT00000009161
Protein Domains
EF-hand


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000009162 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000009161.3 UniProtKB/TrEMBL
Gene3D-CATH EF-hand UniProtKB/TrEMBL
InterPro Calbindin UniProtKB/TrEMBL
  Calbindin_Ca-bind UniProtKB/TrEMBL
  EF-hand-dom_pair UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/TrEMBL
NCBI Gene Calb1 ENTREZGENE
PANTHER CALBINDIN UniProtKB/TrEMBL
  PTHR19972:SF14 UniProtKB/TrEMBL
Pfam EF-hand_1 UniProtKB/TrEMBL
  EF-hand_7 UniProtKB/TrEMBL
PROSITE EF_HAND_1 UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/TrEMBL
SMART EFh UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/TrEMBL
UniProt I3MD14 ENTREZGENE, UniProtKB/TrEMBL