CALB2 (calbindin 2) - Rat Genome Database

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Gene: CALB2 (calbindin 2) Sus scrofa
Analyze
Symbol: CALB2
Name: calbindin 2
RGD ID: 14016694
Description: ENCODES a protein that exhibits calcium ion binding (ortholog); INVOLVED IN regulation of long-term synaptic potentiation (inferred); regulation of presynaptic cytosolic calcium ion concentration (inferred); PARTICIPATES IN calcium/calcium-mediated signaling pathway; ASSOCIATED WITH amyotrophic lateral sclerosis type 1 (ortholog); autosomal dominant dyskeratosis congenita 6 (ortholog); Endometrial Neoplasms (ortholog); FOUND IN cuticular plate (ortholog); neuronal cell body (ortholog); parallel fiber to Purkinje cell synapse (ortholog)
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: calbindin 2, 29kDa; calretinin
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl614,391,857 - 14,420,663 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1614,392,220 - 14,420,663 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2613,904,114 - 13,933,267 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:14681463   PMID:16181738   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
CALB2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl614,391,857 - 14,420,663 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1614,392,220 - 14,420,663 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2613,904,114 - 13,933,267 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CALB2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381671,358,723 - 71,390,433 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1671,358,713 - 71,390,436 (+)EnsemblGRCh38hg38GRCh38
GRCh371671,392,626 - 71,424,336 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361669,950,127 - 69,981,842 (+)NCBINCBI36Build 36hg18NCBI36
Build 341669,950,126 - 69,981,836NCBI
Celera1655,708,128 - 55,740,202 (+)NCBICelera
Cytogenetic Map16q22.2NCBI
HuRef1657,186,719 - 57,192,385 (+)NCBIHuRef
HuRef1657,160,840 - 57,186,546 (+)NCBIHuRef
CHM1_11672,805,453 - 72,837,193 (+)NCBICHM1_1
T2T-CHM13v2.01677,174,637 - 77,207,658 (+)NCBIT2T-CHM13v2.0
Calb2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398110,869,158 - 110,894,844 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8110,864,134 - 110,894,842 (-)EnsemblGRCm39 Ensembl
GRCm388110,142,526 - 110,168,212 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8110,137,502 - 110,168,210 (-)EnsemblGRCm38mm10GRCm38
MGSCv378112,666,438 - 112,692,106 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368113,031,667 - 113,057,335 (-)NCBIMGSCv36mm8
Celera8114,365,078 - 114,391,219 (-)NCBICelera
Cytogenetic Map8D3NCBI
cM Map857.44NCBI
Calb2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81955,023,849 - 55,050,858 (-)NCBIGRCr8
mRatBN7.21938,114,435 - 38,141,438 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1938,114,424 - 38,141,438 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1944,920,886 - 44,947,919 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01945,574,230 - 45,601,269 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01947,883,801 - 47,910,840 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01941,482,743 - 41,509,617 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1941,482,728 - 41,509,658 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01952,310,641 - 52,337,700 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41940,023,072 - 40,051,150 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11940,027,952 - 40,056,031 (-)NCBI
Celera1937,512,226 - 37,538,062 (-)NCBICelera
Cytogenetic Map19q12NCBI
Calb2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554844,075,067 - 4,103,559 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554844,075,103 - 4,103,509 (+)NCBIChiLan1.0ChiLan1.0
CALB2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21882,768,831 - 82,801,912 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11688,702,425 - 88,982,493 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01653,620,317 - 53,653,372 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11671,195,770 - 71,227,937 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1671,195,770 - 71,227,937 (+)Ensemblpanpan1.1panPan2
CALB2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1577,178,158 - 77,205,663 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl577,177,951 - 77,205,671 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha577,139,985 - 77,167,208 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0577,616,925 - 77,644,159 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl577,616,951 - 77,644,096 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1577,437,354 - 77,464,585 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0577,260,506 - 77,287,715 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0577,759,356 - 77,786,581 (+)NCBIUU_Cfam_GSD_1.0
Calb2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934937,217,095 - 37,244,688 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647522,341,822 - 22,372,609 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647522,344,416 - 22,372,015 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CALB2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1554,503,635 - 54,538,304 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl554,504,082 - 54,538,441 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604717,312,991 - 17,345,343 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Calb2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474613,548,540 - 13,578,501 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474613,549,339 - 13,577,929 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CALB2
1102 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system nervous system
High
Medium 9
Low 2 12
Below cutoff 1 2

Sequence


RefSeq Acc Id: ENSSSCT00000003025   ⟹   ENSSSCP00000002946
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl614,391,857 - 14,420,663 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000041287   ⟹   ENSSSCP00000043184
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl614,392,166 - 14,416,126 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000093751   ⟹   ENSSSCP00000080299
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl614,392,166 - 14,415,093 (+)Ensembl
RefSeq Acc Id: NM_001194980   ⟹   NP_001181909
RefSeq Status: VALIDATED
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1614,392,220 - 14,420,663 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001181909   ⟸   NM_001194980
- UniProtKB: E2IUK5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000043184   ⟸   ENSSSCT00000041287
RefSeq Acc Id: ENSSSCP00000002946   ⟸   ENSSSCT00000003025
RefSeq Acc Id: ENSSSCP00000080299   ⟸   ENSSSCT00000093751
Protein Domains
EF-hand


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000002730 Ensembl, UniProtKB/TrEMBL
  ENSSSCG00015064392 UniProtKB/TrEMBL
  ENSSSCG00025070112 UniProtKB/TrEMBL
  ENSSSCG00030071141 UniProtKB/TrEMBL
  ENSSSCG00040049360 UniProtKB/TrEMBL
  ENSSSCG00045024901 UniProtKB/TrEMBL
  ENSSSCG00050015807 UniProtKB/TrEMBL
  ENSSSCG00055019049 UniProtKB/TrEMBL
  ENSSSCG00060041028 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000003025.5 UniProtKB/TrEMBL
  ENSSSCT00000041287.2 UniProtKB/TrEMBL
  ENSSSCT00000093751.1 UniProtKB/TrEMBL
  ENSSSCT00015087012.1 UniProtKB/TrEMBL
  ENSSSCT00025096850.1 UniProtKB/TrEMBL
  ENSSSCT00030099594.1 UniProtKB/TrEMBL
  ENSSSCT00040067132.1 UniProtKB/TrEMBL
  ENSSSCT00045042781.1 UniProtKB/TrEMBL
  ENSSSCT00050021503.1 UniProtKB/TrEMBL
  ENSSSCT00055037220.1 UniProtKB/TrEMBL
  ENSSSCT00055037381.1 UniProtKB/TrEMBL
  ENSSSCT00060055599.1 UniProtKB/TrEMBL
  ENSSSCT00060055615.1 UniProtKB/TrEMBL
Gene3D-CATH EF-hand UniProtKB/TrEMBL
InterPro CALB2 UniProtKB/TrEMBL
  EF-hand-dom_pair UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/TrEMBL
KEGG Report ssc:100127479 UniProtKB/TrEMBL
NCBI Gene CALB2 ENTREZGENE
PANTHER CALBINDIN UniProtKB/TrEMBL
  PTHR19972:SF4 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 A0A287AGT1_PIG UniProtKB/TrEMBL
  A0A8D0JI95_PIG UniProtKB/TrEMBL
  A0A8D1VHK5_PIG UniProtKB/TrEMBL
  A0A8W4FLT2_PIG UniProtKB/TrEMBL
  E2IUK5 ENTREZGENE, UniProtKB/TrEMBL
  F1S3E7_PIG UniProtKB/TrEMBL
VGNC ID VGNC:86139 ENTREZGENE