Ercc6 (ERCC excision repair 6, chromatin remodeling factor) - Rat Genome Database

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Gene: Ercc6 (ERCC excision repair 6, chromatin remodeling factor) Ictidomys tridecemlineatus
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Symbol: Ercc6
Name: ERCC excision repair 6, chromatin remodeling factor
RGD ID: 12594993
Description: ENCODES a protein that exhibits DNA helicase activity (ortholog); RNA polymerase binding (ortholog); sequence-specific DNA binding (ortholog); INVOLVED IN DNA damage response (ortholog); DNA protection (ortholog); DNA repair (ortholog); PARTICIPATES IN altered nucleotide excision repair pathway; nucleotide excision repair pathway; ASSOCIATED WITH age related macular degeneration 5 (ortholog); arthrogryposis multiplex congenita (ortholog); cataract (ortholog); FOUND IN B-WICH complex (ortholog); nuclear body (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: DNA excision repair protein ERCC-6; ERCC excision repair 6, chromatin remodeling factor, transcript variant X1; ERCC excision repair 6, chromatin remodeling factor, transcript variant X2; ERCC excision repair 6, chromatin remodeling factor, transcript variant X3; ERCC excision repair 6, chromatin remodeling factor, transcript variant X4; excision repair cross-complementing rodent repair deficiency, complementation group 6
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721379,558,979 - 79,640,918 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936728761,804 - 844,690 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936728706,499 - 843,447 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
base-excision repair  (IEA)
chromatin remodeling  (IEA)
DNA damage checkpoint signaling  (IEA)
DNA damage response  (IEA,ISO)
DNA protection  (ISO)
DNA repair  (IEA,ISO)
double-strand break repair via classical nonhomologous end joining  (IEA)
double-strand break repair via synthesis-dependent strand annealing  (IEA)
intrinsic apoptotic signaling pathway in response to DNA damage  (IEA,ISO)
JNK cascade  (IEA,ISO)
multicellular organism growth  (IEA,ISO)
negative regulation of double-strand break repair via nonhomologous end joining  (IEA)
neurogenesis  (IEA)
neuron differentiation  (IEA)
neuron projection development  (IEA)
photoreceptor cell maintenance  (IEA,ISO)
positive regulation of defense response to virus by host  (ISO)
positive regulation of DNA repair  (IEA)
positive regulation of DNA-templated transcription, elongation  (IEA)
positive regulation of double-strand break repair via homologous recombination  (IEA)
positive regulation of gene expression  (ISO)
positive regulation of peptidyl-serine phosphorylation of STAT protein  (ISO)
positive regulation of transcription by RNA polymerase III  (IEA)
positive regulation of transcription initiation by RNA polymerase II  (IEA,ISO)
pyrimidine dimer repair  (IEA,ISO)
reciprocal meiotic recombination  (IEA)
regulation of DNA-templated transcription elongation  (IEA)
regulation of transcription elongation by RNA polymerase II  (ISO)
response to gamma radiation  (IEA,ISO)
response to oxidative stress  (IEA,ISO)
response to superoxide  (IEA,ISO)
response to toxic substance  (IEA,ISO)
response to UV  (IEA,ISO)
response to UV-B  (IEA,ISO)
response to X-ray  (IEA,ISO)
single strand break repair  (IEA)
transcription elongation by RNA polymerase I  (IEA,ISO)
transcription-coupled nucleotide-excision repair  (IEA,ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Ercc6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721379,558,979 - 79,640,918 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936728761,804 - 844,690 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936728706,499 - 843,447 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ERCC6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381049,434,881 - 49,539,538 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1049,454,168 - 49,539,538 (-)EnsemblGRCh38hg38GRCh38
GRCh371050,642,927 - 50,747,584 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361050,336,715 - 50,417,078 (-)NCBINCBI36Build 36hg18NCBI36
Build 341050,336,714 - 50,417,078NCBI
Celera1044,250,656 - 44,333,241 (-)NCBICelera
Cytogenetic Map10q11.23NCBI
HuRef1044,927,342 - 45,011,950 (-)NCBIHuRef
CHM1_11050,944,706 - 51,029,274 (-)NCBICHM1_1
T2T-CHM13v2.01050,283,667 - 50,388,257 (-)NCBIT2T-CHM13v2.0
Ercc6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391432,235,248 - 32,302,947 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1432,235,478 - 32,302,947 (+)EnsemblGRCm39 Ensembl
GRCm381432,513,291 - 32,580,990 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1432,513,521 - 32,580,990 (+)EnsemblGRCm38mm10GRCm38
MGSCv371433,326,707 - 33,394,175 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361431,342,530 - 31,409,998 (+)NCBIMGSCv36mm8
Celera1428,771,098 - 28,837,767 (+)NCBICelera
Cytogenetic Map14BNCBI
cM Map1419.4NCBI
Ercc6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8167,771,311 - 7,841,895 (+)NCBIGRCr8
mRatBN7.2167,764,983 - 7,835,587 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl167,765,013 - 7,835,587 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx167,780,912 - 7,847,534 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0168,925,860 - 8,992,482 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0167,779,882 - 7,846,470 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0168,734,028 - 8,804,610 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl168,734,035 - 8,804,610 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01610,699,983 - 10,770,565 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4168,024,881 - 8,091,587 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1168,024,868 - 8,088,560 (+)NCBI
Celera167,365,531 - 7,432,176 (-)NCBICelera
Cytogenetic Map16p16NCBI
Ercc6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955556748,231 - 813,133 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955556745,175 - 812,215 (+)NCBIChiLan1.0ChiLan1.0
ERCC6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2861,722,441 - 61,811,183 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11061,721,084 - 61,812,606 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01044,703,720 - 44,784,948 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
ERCC6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1281,358,383 - 1,432,276 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl281,361,107 - 1,427,162 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha281,593,582 - 1,667,457 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0281,534,813 - 1,608,719 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl281,534,813 - 1,608,641 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1281,333,055 - 1,406,921 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0281,370,132 - 1,444,015 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0281,502,030 - 1,575,915 (-)NCBIUU_Cfam_GSD_1.0
ERCC6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1490,002,024 - 90,075,898 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11489,998,125 - 90,075,911 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21497,907,746 - 97,985,104 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Ercc6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624928463,279 - 530,115 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624928458,651 - 532,201 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


RefSeq Acc Id: ENSSTOT00000003205   ⟹   ENSSTOP00000002862
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936728761,804 - 844,690 (+)Ensembl
RefSeq Acc Id: XM_005339066   ⟹   XP_005339123
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721379,558,979 - 79,640,918 (+)NCBI
SpeTri2.0NW_004936728761,821 - 843,447 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021735773   ⟹   XP_021591448
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721379,559,308 - 79,640,918 (+)NCBI
SpeTri2.0NW_004936728762,127 - 843,447 (+)NCBI
Sequence:
RefSeq Acc Id: XM_040271886   ⟹   XP_040127820
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721379,558,994 - 79,640,918 (+)NCBI
RefSeq Acc Id: XM_040271887   ⟹   XP_040127821
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721379,559,304 - 79,640,918 (+)NCBI
RefSeq Acc Id: XM_040271888   ⟹   XP_040127822
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440721379,558,994 - 79,640,918 (+)NCBI
RefSeq Acc Id: XP_005339123   ⟸   XM_005339066
- Peptide Label: isoform X1
- UniProtKB: I3M1U9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021591448   ⟸   XM_021735773
- Peptide Label: isoform X1
- UniProtKB: I3M1U9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040127820   ⟸   XM_040271886
- Peptide Label: isoform X1
- UniProtKB: I3M1U9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040127822   ⟸   XM_040271888
- Peptide Label: isoform X2
RefSeq Acc Id: XP_040127821   ⟸   XM_040271887
- Peptide Label: isoform X1
- UniProtKB: I3M1U9 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSSTOP00000002862   ⟸   ENSSTOT00000003205

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000003183 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000003205.3 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.10810 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
InterPro Helicase_ATP-bd UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  SNF2-like_sf UniProtKB/TrEMBL
  SNF2_N UniProtKB/TrEMBL
NCBI Gene Ercc6 ENTREZGENE
PANTHER DNA EXCISION REPAIR PROTEIN ERCC-6-RELATED UniProtKB/TrEMBL
  SNF2/RAD54 FAMILY MEMBER UniProtKB/TrEMBL
Pfam Helicase_C UniProtKB/TrEMBL
  SNF2_N UniProtKB/TrEMBL
PROSITE HELICASE_ATP_BIND_1 UniProtKB/TrEMBL
  HELICASE_CTER UniProtKB/TrEMBL
SMART DEXDc UniProtKB/TrEMBL
  HELICc UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt I3M1U9 ENTREZGENE, UniProtKB/TrEMBL