Pcgf6 (polycomb group ring finger 6) - Rat Genome Database

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Gene: Pcgf6 (polycomb group ring finger 6) Ictidomys tridecemlineatus
Analyze
Symbol: Pcgf6
Name: polycomb group ring finger 6
RGD ID: 12602749
Description: ENCODES a protein that exhibits metal ion binding (inferred); zinc ion binding (inferred); INVOLVED IN chromatin remodeling (inferred); negative regulation of DNA-templated transcription (inferred); negative regulation of transcription by RNA polymerase II (inferred); PARTICIPATES IN histone modification pathway; ASSOCIATED WITH desmoplastic/nodular medulloblastoma (ortholog); FOUND IN nucleus (inferred); PcG protein complex (inferred); PRC1 complex (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: polycomb group RING finger protein 6
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_02440721331,111,640 - 31,138,470 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366002,714,843 - 2,741,697 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366002,714,883 - 2,741,418 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pcgf6Squirreldesmoplastic/nodular medulloblastoma  ISORGD:13538488554872ClinVar Annotator: match by term: Desmoplastic/nodular medulloblastomaClinVarPMID:12068298


Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pcgf6Squirrelchromatin remodeling involved_inIEAUniProtKB:Q9BYE7|ensembl:ENSP00000358862150520179 EnsemblGO_REF:0000107
Pcgf6Squirrelnegative regulation of DNA-templated transcription involved_inIEAUniProtKB:Q9BYE7|ensembl:ENSP00000358862150520179 EnsemblGO_REF:0000107
Pcgf6Squirrelnegative regulation of transcription by RNA polymerase II involved_inIEAUniProtKB:Q99NA9|ensembl:ENSMUSP00000026032150520179 EnsemblGO_REF:0000107

Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pcgf6Squirrelnucleus located_inIEAUniProtKB:Q99NA9|UniProtKB:Q9BYE7|ensembl:ENSMUSP00000026032|ensembl:ENSP00000358862150520179 EnsemblGO_REF:0000107
Pcgf6Squirrelnucleus located_inIEAUniProtKB-SubCell:SL-0191150520179 UniProtGO_REF:0000044
Pcgf6SquirrelPcG protein complex part_ofIEAUniProtKB:Q99NA9|UniProtKB:Q9BYE7|ensembl:ENSMUSP00000026032|ensembl:ENSP00000358862150520179 EnsemblGO_REF:0000107
Pcgf6SquirrelPcG protein complex part_ofIEAARBA:ARBA00026510150520179 UniProtGO_REF:0000117
Pcgf6SquirrelPRC1 complex part_ofIEAUniProtKB:Q9BYE7|ensembl:ENSP00000358862150520179 EnsemblGO_REF:0000107

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pcgf6Squirrelmetal ion binding enablesIEAUniProtKB-KW:KW-0479150520179 UniProtGO_REF:0000043
Pcgf6Squirrelprotein binding enablesISOUniProtKB:O95931|UniProtKB:Q06587|UniProtKB:Q99496|UniProtKB:Q9HC529068941 PMID:27705803, PMID:33961781IntActPMID:27705803|PMID:33961781
Pcgf6Squirrelprotein binding enablesISOUniProtKB:Q9CQJ49068941 PMID:28596365UniProtPMID:28596365
Pcgf6Squirrelprotein binding enablesISOUniProtKB:Q994969068941 PMID:26496610IntActPMID:26496610
Pcgf6Squirrelprotein binding enablesISOUniProtKB:O00257-3|UniProtKB:O95931|UniProtKB:Q9HC529068941 PMID:21282530IntActPMID:21282530
Pcgf6Squirrelprotein binding enablesISOUniProtKB:Q06587|UniProtKB:Q994969068941 PMID:22493164, PMID:24981860IntActPMID:22493164|PMID:24981860
Pcgf6Squirrelprotein binding enablesISOUniProtKB:O95931|UniProtKB:Q99496|UniProtKB:Q9HC529068941 PMID:28514442IntActPMID:28514442
Pcgf6Squirrelzinc ion binding enablesIEAUniProtKB-KW:KW-0863150520179 UniProtGO_REF:0000043

RGD Manual Annotations


  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pcgf6Squirrelhistone modification pathway   ISORGD:13538489068941 RGDPMID:23473600|PMID:25065329|REF_RGD_ID:9479058|REF_RGD_ID:9479060
PMID:30032202  



Pcgf6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721331,111,640 - 31,138,470 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366002,714,843 - 2,741,697 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366002,714,883 - 2,741,418 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCGF6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3810103,302,796 - 103,351,140 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl10103,302,796 - 103,351,144 (-)EnsemblGRCh38hg38GRCh38
GRCh3710105,062,553 - 105,110,897 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3610105,052,543 - 105,100,881 (-)NCBINCBI36Build 36hg18NCBI36
Build 3410105,052,543 - 105,100,881NCBI
Celera1098,802,479 - 98,850,828 (-)NCBICelera
Cytogenetic Map10q24.33NCBI
HuRef1098,693,204 - 98,741,643 (-)NCBIHuRef
CHM1_110105,346,724 - 105,395,054 (-)NCBICHM1_1
T2T-CHM13v2.010104,190,415 - 104,238,442 (-)NCBIT2T-CHM13v2.0
Pcgf6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391947,022,056 - 47,039,379 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1947,022,056 - 47,039,345 (-)EnsemblGRCm39 Ensembl
GRCm381947,033,617 - 47,050,939 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1947,033,617 - 47,050,906 (-)EnsemblGRCm38mm10GRCm38
MGSCv371947,108,109 - 47,125,335 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361947,086,930 - 47,104,156 (-)NCBIMGSCv36mm8
Celera1947,801,827 - 47,819,682 (-)NCBICelera
Cytogenetic Map19C3NCBI
cM Map1939.11NCBI
Pcgf6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81255,866,709 - 255,886,306 (-)NCBIGRCr8
mRatBN7.21245,925,354 - 245,944,964 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1245,925,360 - 245,944,914 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1254,051,540 - 254,071,097 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01260,744,865 - 260,764,438 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01253,394,241 - 253,413,823 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01266,811,418 - 266,831,022 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1266,811,420 - 266,830,976 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01274,241,829 - 274,261,565 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41252,357,987 - 252,377,545 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11252,622,561 - 252,642,118 (-)NCBI
Celera1241,697,022 - 241,716,581 (-)NCBICelera
Cytogenetic Map1q54NCBI
Pcgf6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554857,196,626 - 7,227,536 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554857,196,626 - 7,228,918 (+)NCBIChiLan1.0ChiLan1.0
PCGF6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v28115,188,317 - 115,236,309 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan110115,193,649 - 115,241,653 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01099,901,760 - 99,949,733 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.110103,353,439 - 103,426,283 (-)NCBIpanpan1.1PanPan1.1panPan2
PCGF6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12815,697,707 - 15,733,177 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2815,605,040 - 15,733,097 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2815,869,655 - 15,905,116 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02816,173,796 - 16,209,301 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2816,159,740 - 16,209,313 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12815,723,250 - 15,758,660 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02815,750,627 - 15,786,077 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02815,889,370 - 15,924,844 (-)NCBIUU_Cfam_GSD_1.0
PCGF6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14114,249,820 - 114,287,434 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.114114,062,457 - 114,287,458 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214124,190,350 - 124,210,490 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PCGF6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1996,349,418 - 96,396,083 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl996,349,423 - 96,395,650 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604857,462,812 - 57,509,143 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pcgf6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248312,549,951 - 2,587,885 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

.






Ensembl Acc Id: ENSSTOT00000014519   ⟹   ENSSTOP00000013010
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049366002,714,843 - 2,741,697 (+)Ensembl
RefSeq Acc Id: XM_005333606   ⟹   XP_005333663
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721331,111,645 - 31,138,470 (+)NCBI
SpeTri2.0NW_0049366002,714,883 - 2,741,418 (+)NCBI
Sequence:
RefSeq Acc Id: XM_040273052   ⟹   XP_040128986
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721331,111,641 - 31,138,470 (+)NCBI
RefSeq Acc Id: XM_040273053   ⟹   XP_040128987
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721331,111,642 - 31,138,470 (+)NCBI
RefSeq Acc Id: XM_040273054   ⟹   XP_040128988
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721331,111,644 - 31,138,470 (+)NCBI
RefSeq Acc Id: XR_005728240
Type: NON-CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721331,111,640 - 31,133,702 (+)NCBI
Protein RefSeqs XP_005333663 (Get FASTA)   NCBI Sequence Viewer  
  XP_040128986 (Get FASTA)   NCBI Sequence Viewer  
  XP_040128987 (Get FASTA)   NCBI Sequence Viewer  
  XP_040128988 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000013010.3
RefSeq Acc Id: XP_005333663   ⟸   XM_005333606
- Peptide Label: isoform X4
- UniProtKB: I3MN33 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040128986   ⟸   XM_040273052
- Peptide Label: isoform X1
RefSeq Acc Id: XP_040128987   ⟸   XM_040273053
- Peptide Label: isoform X2
RefSeq Acc Id: XP_040128988   ⟸   XM_040273054
- Peptide Label: isoform X3
Ensembl Acc Id: ENSSTOP00000013010   ⟸   ENSSTOT00000014519
RING-type



1 to 22 of 22 rows
Database
Acc Id
Source(s)
Ensembl Genes ENSSTOG00000014511 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000014519.3 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
  Phosphatidylinositol 3-kinase Catalytic Subunit, Chain A, domain 1 UniProtKB/TrEMBL
InterPro PcG_RING_finger UniProtKB/TrEMBL
  PCGF6 UniProtKB/TrEMBL
  PCGF6_RAWUL UniProtKB/TrEMBL
  RAWUL UniProtKB/TrEMBL
  Ubiquitin-like_domsf UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_RING_CS UniProtKB/TrEMBL
NCBI Gene Pcgf6 ENTREZGENE
PANTHER POLYCOMB GROUP RING FINGER PROTEIN UniProtKB/TrEMBL
Pfam RAWUL UniProtKB/TrEMBL
  zf-C3HC4_2 UniProtKB/TrEMBL
PROSITE ZF_RING_1 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
SMART RING UniProtKB/TrEMBL
Superfamily-SCOP RING/U-box UniProtKB/TrEMBL
  SSF54236 UniProtKB/TrEMBL
UniProt I3MN33 ENTREZGENE, UniProtKB/TrEMBL
1 to 22 of 22 rows