CALCB (calcitonin-related polypeptide beta) - Rat Genome Database

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Pathways
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Gene: CALCB (calcitonin-related polypeptide beta) Sus scrofa
Analyze
Symbol: CALCB
Name: calcitonin-related polypeptide beta
RGD ID: 13938394
Description: ENCODES a protein that exhibits identical protein binding (ortholog); protein-containing complex binding (ortholog); signaling receptor binding (ortholog); INVOLVED IN adenylate cyclase-activating G protein-coupled receptor signaling pathway (ortholog); antimicrobial humoral immune response mediated by antimicrobial peptide (ortholog); artery vasodilation involved in baroreceptor response to increased systemic arterial blood pressure (ortholog); ASSOCIATED WITH acute necrotizing pancreatitis (ortholog); amyotrophic lateral sclerosis (ortholog); Animal Disease Models (ortholog); FOUND IN axon (ortholog); cytoplasm (ortholog); hippocampal mossy fiber to CA3 synapse (ortholog); INTERACTS WITH 3',5'-cyclic AMP; acrylamide
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: calcitonin gene-related peptide; calcitonin gene-related peptide 2; CGRP; preprocalcitonin
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1244,043,135 - 44,048,651 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2247,248,414 - 47,253,904 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adenylate cyclase-activating G protein-coupled receptor signaling pathway  (IBA,IEA,ISO)
antimicrobial humoral immune response mediated by antimicrobial peptide  (ISO)
artery vasodilation involved in baroreceptor response to increased systemic arterial blood pressure  (ISO)
calcitonin gene-related peptide receptor signaling pathway  (ISO)
cell adhesion  (ISO)
cellular response to nerve growth factor stimulus  (ISO)
cellular response to tumor necrosis factor  (ISO)
detection of temperature stimulus involved in sensory perception of pain  (ISO)
embryo implantation  (ISO)
endothelial cell migration  (ISO)
endothelial cell proliferation  (ISO)
feeding behavior  (ISO)
G protein-coupled receptor internalization  (ISO)
inflammatory response  (ISO)
innate immune response  (ISO)
intracellular calcium ion homeostasis  (ISO)
leukocyte cell-cell adhesion  (ISO)
monocyte chemotaxis  (ISO)
negative regulation of blood pressure  (ISO)
negative regulation of bone resorption  (ISO)
negative regulation of calcium ion transport into cytosol  (ISO)
negative regulation of DNA-templated transcription  (ISO)
negative regulation of ossification  (ISO)
negative regulation of osteoclast differentiation  (ISO)
negative regulation of smooth muscle contraction  (ISO)
nervous system process involved in regulation of systemic arterial blood pressure  (ISO)
neuropeptide signaling pathway  (ISO)
ossification  (ISO)
phospholipase C-activating G protein-coupled receptor signaling pathway  (ISO)
positive regulation of cell adhesion  (ISO)
positive regulation of cytosolic calcium ion concentration  (ISO)
positive regulation of interleukin-1 alpha production  (ISO)
positive regulation of interleukin-8 production  (ISO)
positive regulation of macrophage differentiation  (ISO)
receptor internalization  (ISO)
regulation of cytosolic calcium ion concentration  (IBA,IEA)
response to heat  (ISO)
response to pain  (ISO)
signal transduction  (IEA)
smooth muscle contraction  (ISO)
vasculature development  (ISO)
vasodilation  (ISO)

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:17763367   PMID:19459441   PMID:22252756   PMID:22301074   PMID:24713103   PMID:30032202  


Genomics

Comparative Map Data
CALCB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1244,043,135 - 44,048,651 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2247,248,414 - 47,253,904 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CALCA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381114,966,668 - 14,972,351 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1114,966,622 - 14,972,354 (-)EnsemblGRCh38hg38GRCh38
GRCh371114,988,214 - 14,993,897 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361114,944,792 - 14,950,408 (-)NCBINCBI36Build 36hg18NCBI36
Build 341114,946,625 - 14,950,427NCBI
Celera1115,115,335 - 15,120,952 (-)NCBICelera
Cytogenetic Map11p15.2NCBI
HuRef1114,671,857 - 14,677,473 (-)NCBIHuRef
CHM1_11114,987,226 - 14,992,843 (-)NCBICHM1_1
T2T-CHM13v2.01115,063,025 - 15,068,708 (-)NCBIT2T-CHM13v2.0
Calca
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397114,225,223 - 114,236,145 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl7114,230,713 - 114,235,592 (-)EnsemblGRCm39 Ensembl
GRCm387114,625,981 - 114,636,910 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7114,631,478 - 114,636,357 (-)EnsemblGRCm38mm10GRCm38
MGSCv377121,774,992 - 121,779,871 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367114,422,640 - 114,427,439 (-)NCBIMGSCv36mm8
Celera7114,584,937 - 114,589,792 (-)NCBICelera
Cytogenetic Map7F1NCBI
cM Map759.99NCBI
Calca
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81178,312,636 - 178,317,588 (-)NCBIGRCr8
mRatBN7.21168,878,212 - 168,883,176 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1168,878,214 - 168,883,105 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1177,192,440 - 177,197,339 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01184,378,496 - 184,383,399 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01177,090,892 - 177,095,773 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01184,184,018 - 184,188,922 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1184,184,020 - 184,188,911 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01191,158,061 - 191,162,954 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41172,686,168 - 172,691,061 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11172,824,299 - 172,827,127 (-)NCBI
Celera1166,711,610 - 166,716,491 (-)NCBICelera
RH 3.4 Map11317.6RGD
RH 2.0 Map1757.3RGD
Cytogenetic Map1q34NCBI
CALCA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2917,335,385 - 17,340,053 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11117,296,273 - 17,300,935 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01115,055,897 - 15,061,539 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11114,745,588 - 14,751,267 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1114,745,588 - 14,751,267 (-)Ensemblpanpan1.1panPan2
CRSP-3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12137,676,841 - 37,680,643 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2137,676,841 - 37,680,645 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2137,176,307 - 37,180,108 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02138,770,713 - 38,774,520 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2138,770,713 - 38,774,522 (+)EnsemblROS_Cfam_1.0 Ensembl
UNSW_CanFamBas_1.02137,993,320 - 37,997,114 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02138,281,026 - 38,284,825 (+)NCBIUU_Cfam_GSD_1.0
Calca
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494747,766,690 - 47,772,207 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365283,800,577 - 3,805,004 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365283,800,801 - 3,806,000 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC103239768
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1149,946,574 - 49,956,010 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl149,951,694 - 49,954,092 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038147,447,203 - 147,453,110 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Calca
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247666,766,185 - 6,768,173 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247666,764,388 - 6,771,396 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CALCB
154 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

alimentary part of gastrointestinal system nervous system
High
Medium 2
Low 7 6
Below cutoff 1

Sequence


Reference Sequences
RefSeq Acc Id: NM_001102473   ⟹   NP_001095943
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1244,043,135 - 44,048,587 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005661110   ⟹   XP_005661167
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1244,045,590 - 44,048,651 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_001095943   ⟸   NM_001102473
- Peptide Label: precursor
- UniProtKB: A6P7L7 (UniProtKB/TrEMBL),   A0A8D0M1S4 (UniProtKB/TrEMBL),   A0A4X1TJ11 (UniProtKB/TrEMBL),   I3LTM3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005661167   ⟸   XM_005661110
- Peptide Label: isoform X1
- UniProtKB: A6P7L6 (UniProtKB/TrEMBL),   A0A4X1TFF8 (UniProtKB/TrEMBL),   A0A8D0NGR4 (UniProtKB/TrEMBL),   A0A8D0M1G8 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
Calcitonin peptide-like


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000026512 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005043451 UniProtKB/TrEMBL
  ENSSSCG00015035413 UniProtKB/TrEMBL
  ENSSSCG00025071020 UniProtKB/TrEMBL
  ENSSSCG00030035000 UniProtKB/TrEMBL
  ENSSSCG00040071106 UniProtKB/TrEMBL
  ENSSSCG00045015609 UniProtKB/TrEMBL
  ENSSSCG00050006046 UniProtKB/TrEMBL
  ENSSSCG00055028281 UniProtKB/TrEMBL
  ENSSSCG00060007749 UniProtKB/TrEMBL
  ENSSSCG00065022901 UniProtKB/TrEMBL
  ENSSSCG00070009428 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000026203 ENTREZGENE
  ENSSSCT00000026203.4 UniProtKB/TrEMBL
  ENSSSCT00000028268 ENTREZGENE
  ENSSSCT00000028268.3 UniProtKB/TrEMBL
  ENSSSCT00005069780.1 UniProtKB/TrEMBL
  ENSSSCT00005069797.1 UniProtKB/TrEMBL
  ENSSSCT00015046966.1 UniProtKB/TrEMBL
  ENSSSCT00015047076.1 UniProtKB/TrEMBL
  ENSSSCT00025097562.1 UniProtKB/TrEMBL
  ENSSSCT00025097687.1 UniProtKB/TrEMBL
  ENSSSCT00025097795.1 UniProtKB/TrEMBL
  ENSSSCT00030048555.1 UniProtKB/TrEMBL
  ENSSSCT00040097699.1 UniProtKB/TrEMBL
  ENSSSCT00040097746.1 UniProtKB/TrEMBL
  ENSSSCT00040097821.1 UniProtKB/TrEMBL
  ENSSSCT00045026467.1 UniProtKB/TrEMBL
  ENSSSCT00045026499.1 UniProtKB/TrEMBL
  ENSSSCT00045026530.1 UniProtKB/TrEMBL
  ENSSSCT00045026581.1 UniProtKB/TrEMBL
  ENSSSCT00050008220.1 UniProtKB/TrEMBL
  ENSSSCT00050008223.1 UniProtKB/TrEMBL
  ENSSSCT00050008230.1 UniProtKB/TrEMBL
  ENSSSCT00050008239.1 UniProtKB/TrEMBL
  ENSSSCT00055056088.1 UniProtKB/TrEMBL
  ENSSSCT00055056118.1 UniProtKB/TrEMBL
  ENSSSCT00060009888.1 UniProtKB/TrEMBL
  ENSSSCT00065030471.1 UniProtKB/TrEMBL
  ENSSSCT00065030475.1 UniProtKB/TrEMBL
  ENSSSCT00065030484.1 UniProtKB/TrEMBL
  ENSSSCT00070018301.1 UniProtKB/TrEMBL
  ENSSSCT00070018310.1 UniProtKB/TrEMBL
Gene3D-CATH 6.10.250.2190 UniProtKB/TrEMBL
InterPro Calcitonin UniProtKB/TrEMBL
  Calcitonin-like UniProtKB/TrEMBL
  Calcitonin/adrenomedullin UniProtKB/TrEMBL
  Calcitonin_CS UniProtKB/TrEMBL
  Calcitonin_gene-rel_peptide UniProtKB/TrEMBL
  Calcitonin_peptide-like UniProtKB/TrEMBL
KEGG Report ssc:100124407 UniProtKB/TrEMBL
NCBI Gene CALCB ENTREZGENE
PANTHER CALCITONIN UniProtKB/TrEMBL
  CALCITONIN GENE-RELATED PEPTIDE 2 UniProtKB/TrEMBL
  PTHR10505 UniProtKB/TrEMBL
Pfam Calc_CGRP_IAPP UniProtKB/TrEMBL
PRINTS CALCITONINA UniProtKB/TrEMBL
  CALCITONINB UniProtKB/TrEMBL
PROSITE CALCITONIN UniProtKB/TrEMBL
SMART CALCITONIN UniProtKB/TrEMBL
UniProt A0A4X1TFF8 ENTREZGENE
  A0A4X1TJ11 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0M1G8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0M1S4 ENTREZGENE
  A0A8D0NGR4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0WLA5_PIG UniProtKB/TrEMBL
  A0A8D1HG88_PIG UniProtKB/TrEMBL
  A0A8D1HHY0_PIG UniProtKB/TrEMBL
  A0A8D1HJQ3_PIG UniProtKB/TrEMBL
  A0A8D1KKK0_PIG UniProtKB/TrEMBL
  A0A8D1LCG6_PIG UniProtKB/TrEMBL
  A0A8D1LDE5_PIG UniProtKB/TrEMBL
  A6P7L6 ENTREZGENE, UniProtKB/TrEMBL
  A6P7L7 ENTREZGENE, UniProtKB/TrEMBL
  I3LTM3 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A4X1TFF8 UniProtKB/TrEMBL
  A0A8D0M1S4 UniProtKB/TrEMBL