CARF (calcium responsive transcription factor) - Rat Genome Database

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Gene: CARF (calcium responsive transcription factor) Chlorocebus sabaeus
Analyze
Symbol: CARF
Name: calcium responsive transcription factor
RGD ID: 18501167
Description: ENCODES a protein that exhibits DNA binding (inferred); DNA-binding transcription activator activity, RNA polymerase II-specific (inferred); DNA-binding transcription factor activity (inferred); INVOLVED IN cellular response to calcium ion (inferred); positive regulation of transcription by RNA polymerase II (inferred); regulation of transcription by RNA polymerase II (inferred); ASSOCIATED WITH autoimmune lymphoproliferative syndrome type 2B (ortholog); Autoimmune Lymphoproliferative Syndrome, Type V (ortholog); common variable immunodeficiency 1 (ortholog); FOUND IN granular component (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: calcium-responsive transcription factor
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11088,650,436 - 88,735,369 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1088,651,152 - 88,735,384 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040110,652,266 - 110,735,944 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
CARF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11088,650,436 - 88,735,369 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1088,651,152 - 88,735,384 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040110,652,266 - 110,735,944 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
CARF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382202,912,275 - 202,988,263 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2202,912,214 - 202,988,263 (+)EnsemblGRCh38hg38GRCh38
GRCh372203,776,998 - 203,852,986 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362203,485,223 - 203,559,305 (+)NCBINCBI36Build 36hg18NCBI36
Build 342203,602,963 - 203,674,418NCBI
Celera2197,529,656 - 197,603,774 (+)NCBICelera
Cytogenetic Map2q33.2NCBI
HuRef2195,623,816 - 195,698,676 (+)NCBIHuRef
CHM1_12203,783,594 - 203,857,698 (+)NCBICHM1_1
T2T-CHM13v2.02203,393,728 - 203,469,790 (+)NCBIT2T-CHM13v2.0
Carf
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39160,137,380 - 60,193,112 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl160,137,406 - 60,193,112 (+)EnsemblGRCm39 Ensembl
GRCm38160,098,221 - 60,153,953 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl160,098,247 - 60,153,953 (+)EnsemblGRCm38mm10GRCm38
MGSCv37160,155,125 - 60,207,878 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36160,042,827 - 60,095,580 (+)NCBIMGSCv36mm8
Celera160,614,042 - 60,666,816 (+)NCBICelera
Cytogenetic Map1C2NCBI
cM Map130.45NCBI
Carf
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8968,996,419 - 69,046,480 (+)NCBIGRCr8
mRatBN7.2961,502,368 - 61,552,433 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl961,506,956 - 61,550,462 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx970,003,754 - 70,051,035 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0975,119,315 - 75,166,596 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0973,438,022 - 73,485,304 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0966,878,526 - 66,928,658 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl966,888,393 - 66,926,377 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0966,692,215 - 66,742,322 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4958,642,178 - 58,689,313 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1958,799,001 - 58,836,295 (+)NCBI
Celera958,934,642 - 58,981,655 (+)NCBICelera
Cytogenetic Map9q32NCBI
Carf
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545711,896,492 - 11,936,229 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545711,853,256 - 11,947,909 (-)NCBIChiLan1.0ChiLan1.0
CARF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213105,514,952 - 105,596,010 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B105,529,986 - 105,611,406 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B90,145,504 - 90,224,042 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B208,291,738 - 208,368,220 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B208,291,742 - 208,367,028 (+)Ensemblpanpan1.1panPan2
CARF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13711,786,976 - 11,884,644 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3711,787,078 - 11,848,893 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3712,670,481 - 12,767,767 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03711,723,938 - 11,821,651 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3711,724,583 - 11,802,891 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13711,680,125 - 11,778,004 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03711,651,505 - 11,749,155 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03711,645,422 - 11,743,112 (+)NCBIUU_Cfam_GSD_1.0
Carf
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303159,988,251 - 160,040,680 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367261,922,060 - 2,010,981 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367261,958,561 - 2,010,972 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CARF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15106,410,491 - 106,466,799 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115106,410,245 - 106,482,502 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215117,859,334 - 117,949,120 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Carf
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476513,431,825 - 13,466,969 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476513,370,578 - 13,504,485 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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 hemolymphoid system nervous system
High
Medium 16 28
Low 20 20 32
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000008464   ⟹   ENSCSAP00000006610
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1088,651,152 - 88,735,384 (+)Ensembl
RefSeq Acc Id: XM_038001730   ⟹   XP_037857658
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666040110,652,266 - 110,735,944 (-)NCBI
Protein Sequences
Protein RefSeqs XP_037857658 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000006610.1
Reference Protein Sequences
RefSeq Acc Id: ENSCSAP00000006610   ⟸   ENSCSAT00000008464
RefSeq Acc Id: XP_037857658   ⟸   XM_038001730
- UniProtKB: A0A0D9RDC1 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000010380 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000008464.1 UniProtKB/TrEMBL
InterPro CaRF UniProtKB/TrEMBL
NCBI Gene CARF ENTREZGENE
PANTHER CALCIUM-RESPONSIVE TRANSCRIPTION FACTOR UniProtKB/TrEMBL
  PTHR14694 UniProtKB/TrEMBL
Pfam ALS2CR8 UniProtKB/TrEMBL
UniProt A0A0D9RDC1 ENTREZGENE, UniProtKB/TrEMBL