CBX4 (chromobox 4) - Rat Genome Database

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Gene: CBX4 (chromobox 4) Pan paniscus
Analyze
Symbol: CBX4
Name: chromobox 4
RGD ID: 11869396
Description: ENCODES a protein that exhibits SUMO transferase activity (ortholog); INVOLVED IN negative regulation of transcription by RNA polymerase II (ortholog); protein sumoylation (ortholog); PARTICIPATES IN histone modification pathway; ASSOCIATED WITH hepatocellular carcinoma (ortholog); idiopathic generalized epilepsy (ortholog); Neoplasm Metastasis (ortholog); FOUND IN nuclear body (inferred); nucleoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: E3 SUMO-protein ligase CBX4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly
Position:
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21995,887,592 - 95,893,876 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan117100,716,535 - 100,722,821 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01773,913,264 - 73,919,540 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11779,450,190 - 79,458,866 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1779,449,919 - 79,458,866 (-)Ensemblpanpan1.1panPan2
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

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
CBX4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21995,887,592 - 95,893,876 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan117100,716,535 - 100,722,821 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01773,913,264 - 73,919,540 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11779,450,190 - 79,458,866 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1779,449,919 - 79,458,866 (-)Ensemblpanpan1.1panPan2
CBX4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381779,833,156 - 79,839,440 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1779,833,156 - 79,839,440 (-)EnsemblGRCh38hg38GRCh38
GRCh371777,806,955 - 77,813,239 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361775,421,550 - 75,427,808 (-)NCBINCBI36Build 36hg18NCBI36
Build 341775,421,550 - 75,427,808NCBI
Celera1774,433,438 - 74,439,695 (-)NCBICelera
Cytogenetic Map17q25.3NCBI
HuRef1773,247,786 - 73,258,221 (-)NCBIHuRef
CHM1_11777,893,186 - 77,899,450 (-)NCBICHM1_1
T2T-CHM13v2.01780,730,965 - 80,737,249 (-)NCBIT2T-CHM13v2.0
Cbx4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911118,968,399 - 118,977,067 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11118,968,399 - 118,977,047 (-)EnsemblGRCm39 Ensembl
GRCm3811119,077,571 - 119,086,237 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11119,077,573 - 119,086,221 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711118,938,885 - 118,947,551 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611118,896,245 - 118,902,231 (-)NCBIMGSCv36mm8
Celera11130,821,957 - 130,830,758 (-)NCBICelera
Cytogenetic Map11E2NCBI
cM Map1183.34NCBI
Cbx4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr810104,835,685 - 104,841,727 (-)NCBIGRCr8
mRatBN7.210104,337,140 - 104,343,210 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl10104,336,876 - 104,356,706 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.010108,190,947 - 108,196,455 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10108,190,995 - 108,196,217 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.010107,803,761 - 107,809,306 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera10102,881,315 - 102,890,183 (-)NCBICelera
Cytogenetic Map10q32.3NCBI
Cbx4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555062,998,237 - 3,002,788 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555062,998,241 - 3,002,788 (+)NCBIChiLan1.0ChiLan1.0
CBX4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.191,799,847 - 1,807,500 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl91,802,047 - 1,807,690 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha92,441,071 - 2,447,341 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.092,433,610 - 2,439,872 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl92,433,687 - 2,440,062 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.192,456,843 - 2,463,104 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.092,582,319 - 2,588,578 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.092,663,556 - 2,669,818 (+)NCBIUU_Cfam_GSD_1.0
Cbx4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244056022,461,814 - 2,468,024 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365943,943,924 - 3,950,196 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365943,943,933 - 3,950,124 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CBX4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl122,521,027 - 2,527,241 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1122,520,913 - 2,527,245 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2122,591,117 - 2,597,525 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CBX4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11671,795,919 - 71,802,184 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1671,795,862 - 71,802,051 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607743,093,037 - 43,099,314 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cbx4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248019,003,059 - 9,008,203 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248019,002,290 - 9,008,305 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_034943034 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JARIFH020000019 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSPPAT00000058355   ⟹   ENSPPAP00000035466
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl1779,449,919 - 79,456,348 (-)Ensembl
Ensembl Acc Id: ENSPPAT00000058357   ⟹   ENSPPAP00000035468
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl1779,450,190 - 79,458,866 (-)Ensembl
RefSeq Acc Id: XM_034943034   ⟹   XP_034798925
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v21995,887,592 - 95,893,876 (-)NCBI
NHGRI_mPanPan117100,716,535 - 100,722,821 (-)NCBI
Mhudiblu_PPA_v01773,913,264 - 73,919,540 (-)NCBI
Protein Sequences
Protein RefSeqs XP_034798925 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSPPAP00000035466.1
  ENSPPAP00000035468.1
RefSeq Acc Id: XP_034798925   ⟸   XM_034943034
- UniProtKB: A0A2R9C0M1 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSPPAP00000035466   ⟸   ENSPPAT00000058355
Ensembl Acc Id: ENSPPAP00000035468   ⟸   ENSPPAT00000058357
Protein Domains
Chromo


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000040545 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSPPAT00000058355.1 UniProtKB/TrEMBL
  ENSPPAT00000058357.1 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.40 UniProtKB/TrEMBL
InterPro CBX4 UniProtKB/TrEMBL
  CBX7_C UniProtKB/TrEMBL
  Chromo-like_dom_sf UniProtKB/TrEMBL
  Chromo/chromo_shadow_dom UniProtKB/TrEMBL
  Chromo_domain UniProtKB/TrEMBL
  Chromodomain_CS UniProtKB/TrEMBL
NCBI Gene CBX4 ENTREZGENE
PANTHER E3 SUMO-PROTEIN LIGASE CBX4 UniProtKB/TrEMBL
  PTHR46727 UniProtKB/TrEMBL
Pfam CBX7_C UniProtKB/TrEMBL
  Chromo UniProtKB/TrEMBL
PROSITE CHROMO_1 UniProtKB/TrEMBL
  CHROMO_2 UniProtKB/TrEMBL
SMART CHROMO UniProtKB/TrEMBL
Superfamily-SCOP SSF54160 UniProtKB/TrEMBL
UniProt A0A2R9C0M1 ENTREZGENE, UniProtKB/TrEMBL
  A0A2R9C164_PANPA UniProtKB/TrEMBL