Cabp4 (calcium binding protein 4) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Cabp4 (calcium binding protein 4) Ictidomys tridecemlineatus
Analyze
Symbol: Cabp4
Name: calcium binding protein 4
RGD ID: 12463992
Description: ENCODES a protein that exhibits calcium channel regulator activity (inferred); calcium ion binding (inferred); metal ion binding (inferred); INVOLVED IN photoreceptor cell morphogenesis (ortholog); phototransduction (ortholog); retinal bipolar neuron differentiation (ortholog); PARTICIPATES IN calcium/calcium-mediated signaling pathway; ASSOCIATED WITH achromatopsia (ortholog); Aicardi-Goutieres Syndrome 3 (ortholog); Aland Island eye disease (ortholog); FOUND IN cytoplasm (inferred); cytosol (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: calcium-binding protein 4; LOC101973556
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049475,852,102 - 5,858,657 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365992,293,000 - 2,300,322 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365992,295,124 - 2,299,558 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA)
cytosol  (IEA)

Molecular Function

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


Genomics

Comparative Map Data
Cabp4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049475,852,102 - 5,858,657 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365992,293,000 - 2,300,322 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365992,295,124 - 2,299,558 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CABP4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381167,452,403 - 67,461,752 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1167,452,406 - 67,461,752 (+)EnsemblGRCh38hg38GRCh38
GRCh371167,219,874 - 67,229,223 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361166,979,394 - 66,983,267 (+)NCBINCBI36Build 36hg18NCBI36
Build 341166,979,393 - 66,983,261NCBI
Celera1164,556,021 - 64,562,452 (+)NCBICelera
Cytogenetic Map11q13.2NCBI
HuRef1163,552,383 - 63,558,814 (+)NCBIHuRef
CHM1_11167,105,863 - 67,112,290 (+)NCBICHM1_1
T2T-CHM13v2.01167,446,523 - 67,455,877 (+)NCBIT2T-CHM13v2.0
Cabp4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39194,185,422 - 4,189,608 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl194,185,422 - 4,194,032 (-)EnsemblGRCm39 Ensembl
GRCm38194,135,423 - 4,144,080 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl194,135,423 - 4,144,033 (-)EnsemblGRCm38mm10GRCm38
MGSCv37194,135,423 - 4,139,609 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36194,135,423 - 4,139,609 (-)NCBIMGSCv36mm8
Celera194,006,268 - 4,010,454 (-)NCBICelera
Cytogenetic Map19ANCBI
cM Map193.84NCBI
Cabp4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81210,857,223 - 210,872,431 (-)NCBIGRCr8
mRatBN7.21201,428,671 - 201,442,950 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1201,428,672 - 201,433,172 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1209,780,905 - 209,785,404 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01216,874,134 - 216,878,633 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01209,565,147 - 209,569,646 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01219,383,452 - 219,388,009 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1219,383,452 - 219,388,009 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01226,254,102 - 226,259,991 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41206,718,302 - 206,722,801 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11206,872,324 - 206,876,197 (-)NCBI
Celera1198,973,082 - 198,977,581 (-)NCBICelera
Cytogenetic Map1q43NCBI
Cabp4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542218,023,639 - 18,028,845 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542218,023,639 - 18,028,845 (-)NCBIChiLan1.0ChiLan1.0
CABP4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2968,682,305 - 68,690,527 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11169,724,899 - 69,733,701 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01162,813,477 - 62,820,425 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11166,121,992 - 66,128,785 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1166,121,992 - 66,128,758 (+)Ensemblpanpan1.1panPan2
CABP4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11850,014,698 - 50,017,854 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1850,014,698 - 50,017,854 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1848,625,236 - 48,628,392 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01850,936,942 - 50,940,098 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1850,936,942 - 50,940,098 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11850,150,295 - 50,153,451 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01849,724,784 - 49,727,943 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01850,519,290 - 50,522,446 (-)NCBIUU_Cfam_GSD_1.0
CABP4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl25,068,037 - 5,072,188 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.125,068,535 - 5,079,482 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.223,787,145 - 3,794,983 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CABP4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.116,804,761 - 6,810,277 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl16,805,193 - 6,808,456 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038104,089,770 - 104,094,170 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005333545 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010000006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSSTOT00000029102   ⟹   ENSSTOP00000017195
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365992,293,000 - 2,300,322 (-)Ensembl
RefSeq Acc Id: XM_005333545   ⟹   XP_005333602
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_0244049475,852,102 - 5,858,657 (-)NCBI
SpeTri2.0NW_0049365992,295,124 - 2,299,558 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005333602 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000017195.1
GenBank Protein KAG3284560 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_005333602   ⟸   XM_005333545
- UniProtKB: I3MYJ9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSTOP00000017195   ⟸   ENSSTOT00000029102
Protein Domains
EF-hand


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000019909 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000029102.2 UniProtKB/TrEMBL
Gene3D-CATH EF-hand UniProtKB/TrEMBL
InterPro CaBP1/2/4/5 UniProtKB/TrEMBL
  EF-hand-dom_pair UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/TrEMBL
NCBI Gene LOC101973556 ENTREZGENE
PANTHER PTHR45917 UniProtKB/TrEMBL
  PTHR45917: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 I3MYJ9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-07-13 Cabp4  calcium binding protein 4  LOC101973556  calcium-binding protein 4  Symbol and/or name change 5135510 APPROVED