Cbx1 (chromobox 1) - Rat Genome Database

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Gene: Cbx1 (chromobox 1) Ictidomys tridecemlineatus
Analyze
Symbol: Cbx1
Name: chromobox 1
RGD ID: 12733820
Description: ENCODES a protein that exhibits enzyme binding (ortholog); histone methyltransferase binding (ortholog); identical protein binding (ortholog); INVOLVED IN DNA damage response (ortholog); negative regulation of DNA-templated transcription (ortholog); ASSOCIATED WITH hereditary breast ovarian cancer syndrome (ortholog); prostate cancer (ortholog); Prostatic Neoplasms (ortholog); FOUND IN chromatin (ortholog); chromocenter (ortholog); chromosome, centromeric region (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: chromobox protein homolog 1
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_02440560223,813,951 - 23,832,175 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649013,242,949 - 13,261,195 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649013,242,949 - 13,261,195 (+)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

Biological Process

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Cbx1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560223,813,951 - 23,832,175 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649013,242,949 - 13,261,195 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649013,242,949 - 13,261,195 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CBX1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381748,070,059 - 48,101,478 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1748,070,052 - 48,101,478 (-)EnsemblGRCh38hg38GRCh38
GRCh371746,147,421 - 46,178,840 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361743,502,420 - 43,533,360 (-)NCBINCBI36Build 36hg18NCBI36
Build 341743,502,421 - 43,533,360NCBI
Celera1742,600,238 - 42,633,237 (-)NCBICelera
Cytogenetic Map17q21.32NCBI
HuRef1741,515,771 - 41,548,743 (-)NCBIHuRef
CHM1_11746,212,408 - 46,243,879 (-)NCBICHM1_1
T2T-CHM13v2.01748,931,877 - 48,964,812 (-)NCBIT2T-CHM13v2.0
Cbx1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391196,679,506 - 96,699,808 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1196,679,953 - 96,699,466 (+)EnsemblGRCm39 Ensembl
GRCm381196,788,680 - 96,808,982 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1196,789,127 - 96,808,640 (+)EnsemblGRCm38mm10GRCm38
MGSCv371196,650,450 - 96,669,954 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361196,605,249 - 96,624,730 (+)NCBIMGSCv36mm8
Celera11106,447,917 - 106,455,791 (+)NCBICelera
Cytogenetic Map11DNCBI
cM Map1160.11NCBI
Cbx1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81082,266,746 - 82,286,431 (+)NCBIGRCr8
mRatBN7.21081,770,307 - 81,789,981 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1081,770,342 - 81,791,096 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1086,718,002 - 86,737,691 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01086,216,048 - 86,235,741 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01081,608,645 - 81,628,335 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01084,656,698 - 84,677,112 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1084,669,914 - 84,675,741 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01084,449,614 - 84,470,027 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41085,544,537 - 85,564,903 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11085,539,437 - 85,578,851 (+)NCBI
Celera1080,531,367 - 80,552,403 (+)NCBICelera
Cytogenetic Map10q31NCBI
Cbx1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545113,066,628 - 13,083,693 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545113,066,628 - 13,083,693 (+)NCBIChiLan1.0ChiLan1.0
CBX1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21916,999,946 - 17,033,748 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11718,965,548 - 18,999,327 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0179,434,141 - 9,467,865 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1179,616,923 - 9,647,883 (+)NCBIpanpan1.1PanPan1.1panPan2
CBX1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1924,363,566 - 24,369,060 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl924,358,885 - 24,369,060 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha923,829,363 - 23,850,430 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0925,157,318 - 25,178,406 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl925,158,689 - 25,177,393 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1923,926,775 - 23,947,857 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0924,187,435 - 24,208,348 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0924,314,854 - 24,335,770 (-)NCBIUU_Cfam_GSD_1.0
CBX1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1224,315,518 - 24,351,052 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11224,319,104 - 24,351,057 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21224,219,822 - 24,248,118 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CBX1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11668,471,298 - 68,508,180 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607739,523,509 - 39,556,340 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cbx1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247954,667,765 - 4,689,898 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247954,667,765 - 4,689,881 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSSTOT00000027261   ⟹   ENSSTOP00000021591
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_00493649013,242,949 - 13,261,195 (+)Ensembl
RefSeq Acc Id: XM_013357123   ⟹   XP_013212577
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440560223,813,951 - 23,832,175 (-)NCBI
SpeTri2.0NW_00493649013,242,949 - 13,261,195 (+)NCBI
Sequence:
RefSeq Acc Id: XM_040268881   ⟹   XP_040124815
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440560223,813,951 - 23,831,887 (-)NCBI
Protein Sequences
Protein RefSeqs XP_013212577 (Get FASTA)   NCBI Sequence Viewer  
  XP_040124815 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000021591.1
GenBank Protein KAG3269168 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_013212577   ⟸   XM_013357123
- UniProtKB: I3NB44 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040124815   ⟸   XM_040268881
- UniProtKB: I3NB44 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSSTOP00000021591   ⟸   ENSSTOT00000027261
Protein Domains
Chromo


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000023986 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000027261.2 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.40 UniProtKB/TrEMBL
InterPro Chromo-like_dom_sf UniProtKB/TrEMBL
  Chromo/chromo_shadow_dom UniProtKB/TrEMBL
  Chromo_dom_subgr UniProtKB/TrEMBL
  Chromo_domain UniProtKB/TrEMBL
  Chromo_shadow_dom UniProtKB/TrEMBL
  Chromodomain_CS UniProtKB/TrEMBL
  Heterochromatin_chromo-domain UniProtKB/TrEMBL
NCBI Gene Cbx1 ENTREZGENE
PANTHER CHROMOBOX PROTEIN UniProtKB/TrEMBL
  CHROMOBOX PROTEIN HOMOLOG 1 UniProtKB/TrEMBL
Pfam Chromo UniProtKB/TrEMBL
  Chromo_shadow UniProtKB/TrEMBL
PRINTS CHROMODOMAIN UniProtKB/TrEMBL
PROSITE CHROMO_1 UniProtKB/TrEMBL
  CHROMO_2 UniProtKB/TrEMBL
SMART CHROMO UniProtKB/TrEMBL
  ChSh UniProtKB/TrEMBL
Superfamily-SCOP SSF54160 UniProtKB/TrEMBL
UniProt I3NB44 ENTREZGENE, UniProtKB/TrEMBL