CBX1 (chromobox 1) - Rat Genome Database

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Gene: CBX1 (chromobox 1) Sus scrofa
Analyze
Symbol: CBX1
Name: chromobox 1
RGD ID: 14084096
Description: ENCODES a protein that exhibits enzyme binding (inferred); histone methyltransferase binding (inferred); identical protein binding (inferred); INVOLVED IN negative regulation of DNA-templated transcription (ortholog); ASSOCIATED WITH hereditary breast ovarian cancer syndrome (ortholog); prostate cancer (ortholog); Prostatic Neoplasms (ortholog); FOUND IN chromatin (inferred); chromocenter (inferred); chromosome, centromeric region (inferred); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
Previously known as: chromobox protein homolog 1
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 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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction 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
(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
(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
(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
(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

Variants

.
Variants in CBX1
622 total Variants

Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
hemolymphoid system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
10 4 23 3 2 5 14 12 23 3 6 3

Sequence


Ensembl Acc Id: ENSSSCT00000019083   ⟹   ENSSSCP00000018577
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1224,322,392 - 24,351,052 (-)Ensembl
Ensembl Acc Id: ENSSSCT00000072697   ⟹   ENSSSCP00000060982
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1224,315,518 - 24,341,748 (-)Ensembl
Ensembl Acc Id: ENSSSCT00000073975   ⟹   ENSSSCP00000062059
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1224,318,608 - 24,351,052 (-)Ensembl
Ensembl Acc Id: ENSSSCT00000100866   ⟹   ENSSSCP00000080797
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1224,319,214 - 24,351,052 (-)Ensembl
Ensembl Acc Id: ENSSSCT00000104089   ⟹   ENSSSCP00000081346
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1224,323,160 - 24,351,052 (-)Ensembl
RefSeq Acc Id: XM_003131538   ⟹   XP_003131586
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11224,322,381 - 24,342,273 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013979992   ⟹   XP_013835446
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11224,322,381 - 24,351,047 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021067104   ⟹   XP_020922763
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11224,319,111 - 24,341,801 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021067105   ⟹   XP_020922764
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11224,319,105 - 24,341,802 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021067106   ⟹   XP_020922765
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11224,319,104 - 24,351,057 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021067108   ⟹   XP_020922767
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11224,319,104 - 24,351,057 (-)NCBI
Sequence:
RefSeq Acc Id: XP_020922767   ⟸   XM_021067108
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020922765   ⟸   XM_021067106
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020922764   ⟸   XM_021067105
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020922763   ⟸   XM_021067104
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013835446   ⟸   XM_013979992
- Peptide Label: isoform X2
- UniProtKB: F1RWH1 (UniProtKB/TrEMBL),   A0A4X1UNT9 (UniProtKB/TrEMBL),   A0A8D0JAH5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_003131586   ⟸   XM_003131538
- Peptide Label: isoform X2
- UniProtKB: F1RWH1 (UniProtKB/TrEMBL),   A0A4X1UNT9 (UniProtKB/TrEMBL),   A0A8D0JAH5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSSSCP00000062059   ⟸   ENSSSCT00000073975
Ensembl Acc Id: ENSSSCP00000018577   ⟸   ENSSSCT00000019083
Ensembl Acc Id: ENSSSCP00000060982   ⟸   ENSSSCT00000072697
Ensembl Acc Id: ENSSSCP00000081346   ⟸   ENSSSCT00000104089
Ensembl Acc Id: ENSSSCP00000080797   ⟸   ENSSSCT00000100866
Protein Domains
Chromo


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000017529 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00015043014 UniProtKB/TrEMBL
  ENSSSCG00025006543 UniProtKB/TrEMBL
  ENSSSCG00030058794 UniProtKB/TrEMBL
  ENSSSCG00035033421 UniProtKB/TrEMBL
  ENSSSCG00040029118 UniProtKB/TrEMBL
  ENSSSCG00045036110 UniProtKB/TrEMBL
  ENSSSCG00050057905 UniProtKB/TrEMBL
  ENSSSCG00055005455 UniProtKB/TrEMBL
  ENSSSCG00060056747 UniProtKB/TrEMBL
  ENSSSCG00065052134 UniProtKB/TrEMBL
  ENSSSCG00070018400 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000019083 ENTREZGENE
  ENSSSCT00000019083.4 UniProtKB/TrEMBL
  ENSSSCT00000072697.2 UniProtKB/TrEMBL
  ENSSSCT00000073975.2 UniProtKB/TrEMBL
  ENSSSCT00000100866.1 UniProtKB/TrEMBL
  ENSSSCT00000104089.1 UniProtKB/TrEMBL
  ENSSSCT00015057287.1 UniProtKB/TrEMBL
  ENSSSCT00015057474.1 UniProtKB/TrEMBL
  ENSSSCT00015057685.1 UniProtKB/TrEMBL
  ENSSSCT00025008640.1 UniProtKB/TrEMBL
  ENSSSCT00025008646.1 UniProtKB/TrEMBL
  ENSSSCT00025008675.1 UniProtKB/TrEMBL
  ENSSSCT00030082041.1 UniProtKB/TrEMBL
  ENSSSCT00030082073.1 UniProtKB/TrEMBL
  ENSSSCT00030082087.1 UniProtKB/TrEMBL
  ENSSSCT00030082102.1 UniProtKB/TrEMBL
  ENSSSCT00035044289.1 UniProtKB/TrEMBL
  ENSSSCT00035044302.1 UniProtKB/TrEMBL
  ENSSSCT00035044309.1 UniProtKB/TrEMBL
  ENSSSCT00035044316.1 UniProtKB/TrEMBL
  ENSSSCT00040039133.1 UniProtKB/TrEMBL
  ENSSSCT00040039184.1 UniProtKB/TrEMBL
  ENSSSCT00040039222.1 UniProtKB/TrEMBL
  ENSSSCT00045062019.1 UniProtKB/TrEMBL
  ENSSSCT00045062059.1 UniProtKB/TrEMBL
  ENSSSCT00045062079.1 UniProtKB/TrEMBL
  ENSSSCT00045062114.1 UniProtKB/TrEMBL
  ENSSSCT00050078971.1 UniProtKB/TrEMBL
  ENSSSCT00050078975.1 UniProtKB/TrEMBL
  ENSSSCT00050078982.1 UniProtKB/TrEMBL
  ENSSSCT00055010648.1 UniProtKB/TrEMBL
  ENSSSCT00055010684.1 UniProtKB/TrEMBL
  ENSSSCT00060077290.1 UniProtKB/TrEMBL
  ENSSSCT00060077296.1 UniProtKB/TrEMBL
  ENSSSCT00060077309.1 UniProtKB/TrEMBL
  ENSSSCT00065071398.1 UniProtKB/TrEMBL
  ENSSSCT00065071407.1 UniProtKB/TrEMBL
  ENSSSCT00065071413.1 UniProtKB/TrEMBL
  ENSSSCT00065071419.1 UniProtKB/TrEMBL
  ENSSSCT00070036308.1 UniProtKB/TrEMBL
  ENSSSCT00070036313.1 UniProtKB/TrEMBL
  ENSSSCT00070036320.1 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
KEGG Report ssc:100520403 UniProtKB/TrEMBL
NCBI Gene CBX1 ENTREZGENE
PANTHER CHROMOBOX PROTEIN 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 A0A4X1UNT9 ENTREZGENE, UniProtKB/TrEMBL
  A0A5G2QBZ8_PIG UniProtKB/TrEMBL
  A0A5G2QRW0_PIG UniProtKB/TrEMBL
  A0A8D0JAH5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0JJ60_PIG UniProtKB/TrEMBL
  A0A8D0NRP5_PIG UniProtKB/TrEMBL
  A0A8D1CE31_PIG UniProtKB/TrEMBL
  A0A8W4FNN1_PIG UniProtKB/TrEMBL
  A0A8W4FQN3_PIG UniProtKB/TrEMBL
  F1RWH1 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:97914 ENTREZGENE