Ercc6l (ERCC excision repair 6 like, spindle assembly checkpoint helicase) - Rat Genome Database

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Gene: Ercc6l (ERCC excision repair 6 like, spindle assembly checkpoint helicase) Rattus norvegicus
Analyze
Symbol: Ercc6l
Name: ERCC excision repair 6 like, spindle assembly checkpoint helicase
RGD ID: 1565734
Description: Predicted to enable DNA translocase activity. Predicted to be involved in chromatin remodeling. Orthologous to human ERCC6L (ERCC excision repair 6 like, spindle assembly checkpoint helicase); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: INFERRED
Previously known as: DNA excision repair protein ERCC-6-like; excision repair cross-complementation group 6-like; excision repair cross-complementing rodent repair deficiency complementation group 6 - like; excision repair cross-complementing rodent repair deficiency complementation group 6-like; LOC317252; RGD1565734; similar to SNF2/RAD54 family protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X71,285,380 - 71,301,186 (-)NCBIGRCr8
mRatBN7.2X67,245,414 - 67,261,222 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX67,245,414 - 67,280,756 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX68,728,771 - 68,744,576 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X72,229,010 - 72,244,815 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X69,790,125 - 69,805,932 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X72,018,373 - 72,034,140 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX72,018,373 - 72,034,099 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X72,862,788 - 72,878,439 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X90,195,080 - 90,212,006 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX67,599,264 - 67,615,061 (-)NCBICelera
Cytogenetic MapXq22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (EXP,ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3-methylcholanthrene  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (ISO)
4-hydroxynon-2-enal  (ISO)
acetamide  (EXP)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
caffeine  (ISO)
calcitriol  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
copper(II) sulfate  (ISO)
coumarin  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
diethyl maleate  (EXP)
dioxygen  (ISO)
Enterolactone  (ISO)
enzyme inhibitor  (ISO)
folic acid  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
gentamycin  (EXP)
hydrogen peroxide  (ISO)
L-methionine  (ISO)
leflunomide  (ISO)
lidocaine  (EXP)
lucanthone  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
MeIQx  (ISO)
methotrexate  (ISO)
N-nitrosodiethylamine  (EXP)
N-Nitrosopyrrolidine  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (ISO)
PCB138  (ISO)
perfluorooctanoic acid  (ISO)
phenethyl isothiocyanate  (ISO)
phenobarbital  (ISO)
pirinixic acid  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
rotenone  (EXP)
Senkirkine  (EXP)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
sunitinib  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
toluene 2,4-diisocyanate  (ISO)
topotecan  (EXP)
trichloroethene  (EXP)
triclosan  (ISO)
trimellitic anhydride  (ISO)
trovafloxacin  (ISO)
tunicamycin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. ERCC6L is a biomarker and therapeutic target for non-small cell lung adenocarcinoma. Hou G, etal., Med Oncol. 2022 Feb 12;39(5):51. doi: 10.1007/s12032-022-01654-7.
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. ERCC6L promotes cell growth and invasion in human colorectal cancer. Xie Y, etal., Oncol Lett. 2019 Jul;18(1):237-246. doi: 10.3892/ol.2019.10297. Epub 2019 Apr 30.
Additional References at PubMed
PMID:15917148   PMID:19946888   PMID:23973328  


Genomics

Comparative Map Data
Ercc6l
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X71,285,380 - 71,301,186 (-)NCBIGRCr8
mRatBN7.2X67,245,414 - 67,261,222 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX67,245,414 - 67,280,756 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX68,728,771 - 68,744,576 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X72,229,010 - 72,244,815 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X69,790,125 - 69,805,932 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X72,018,373 - 72,034,140 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX72,018,373 - 72,034,099 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X72,862,788 - 72,878,439 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X90,195,080 - 90,212,006 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX67,599,264 - 67,615,061 (-)NCBICelera
Cytogenetic MapXq22NCBI
ERCC6L
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X72,204,665 - 72,239,027 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX72,204,657 - 72,239,027 (-)EnsemblGRCh38hg38GRCh38
GRCh37X71,424,515 - 71,458,877 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X71,341,232 - 71,375,583 (-)NCBINCBI36Build 36hg18NCBI36
CeleraX71,767,719 - 71,802,070 (-)NCBICelera
Cytogenetic MapXq13.1NCBI
HuRefX65,178,551 - 65,213,938 (-)NCBIHuRef
CHM1_1X71,317,573 - 71,351,927 (-)NCBICHM1_1
T2T-CHM13v2.0X70,637,554 - 70,671,929 (-)NCBIT2T-CHM13v2.0
Ercc6l
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X101,186,426 - 101,200,697 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX101,185,322 - 101,200,697 (-)EnsemblGRCm39 Ensembl
GRCm38X102,142,820 - 102,157,091 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX102,141,716 - 102,157,091 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X99,338,159 - 99,352,430 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X98,345,676 - 98,359,745 (-)NCBIMGSCv36mm8
CeleraX89,054,834 - 89,069,163 (-)NCBICelera
Cytogenetic MapXDNCBI
cM MapX45.16NCBI
Ercc6l
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495547511,596,405 - 11,629,186 (-)NCBIChiLan1.0ChiLan1.0
ERCC6L
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X71,878,138 - 71,913,957 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X71,881,411 - 71,917,558 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X61,441,350 - 61,476,267 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X71,526,160 - 71,560,091 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX71,526,160 - 71,560,091 (-)Ensemblpanpan1.1panPan2
ERCC6L
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X56,239,820 - 56,260,384 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX56,239,850 - 56,260,759 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX47,065,961 - 47,086,510 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X57,294,131 - 57,314,685 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX57,293,460 - 57,314,720 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X55,202,237 - 55,222,785 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X56,612,174 - 56,632,685 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X56,454,703 - 56,475,255 (-)NCBIUU_Cfam_GSD_1.0
Ercc6l
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X45,654,675 - 45,682,293 (+)NCBIHiC_Itri_2
SpeTri2.0NW_00493695925,084 - 30,143 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ERCC6L
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX58,087,169 - 58,117,947 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X58,087,216 - 58,117,942 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X65,796,640 - 65,827,382 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ERCC6L
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X62,013,003 - 62,061,669 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660653,867,122 - 3,913,261 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ercc6l
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249032,444,689 - 2,468,628 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249032,447,723 - 2,468,624 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ercc6l
4 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:241
Count of miRNA genes:149
Interacting mature miRNAs:167
Transcripts:ENSRNOT00000004310
Prediction methods:Microtar, Miranda, Pita, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat

Markers in Region
BF397986  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X67,245,690 - 67,245,858 (+)MAPPERmRatBN7.2
Rnor_6.0X72,018,650 - 72,018,817NCBIRnor6.0
Rnor_5.0X72,863,065 - 72,863,232UniSTSRnor5.0
RGSC_v3.4X90,195,357 - 90,195,524UniSTSRGSC3.4
CeleraX67,599,541 - 67,599,708UniSTS
Cytogenetic MapXq31UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 1 12 22 16 9 16 18 12 18
Low 2 21 28 19 10 19 3 3 40 16 23 11 3
Below cutoff 10 4 3 3 5 7 16 7 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000004310   ⟹   ENSRNOP00000004310
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX67,245,414 - 67,261,222 (-)Ensembl
Rnor_6.0 EnsemblX72,018,373 - 72,034,099 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000098884   ⟹   ENSRNOP00000087500
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX67,245,425 - 67,280,756 (-)Ensembl
RefSeq Acc Id: NM_001098674   ⟹   NP_001092144
RefSeq Status: INFERRED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X71,285,380 - 71,301,186 (-)NCBI
mRatBN7.2X67,245,414 - 67,261,222 (-)NCBI
Rnor_6.0X72,018,373 - 72,034,140 (-)NCBI
Rnor_5.0X72,862,788 - 72,878,439 (-)NCBI
CeleraX67,599,264 - 67,615,061 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001092144 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL95870 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000004310
  ENSRNOP00000004310.4
  ENSRNOP00000087500.1
Reference Protein Sequences
RefSeq Acc Id: NP_001092144   ⟸   NM_001098674
- UniProtKB: D4A0G9 (UniProtKB/TrEMBL),   A6IQE3 (UniProtKB/TrEMBL),   A0A8I6GF73 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004310   ⟸   ENSRNOT00000004310
RefSeq Acc Id: ENSRNOP00000087500   ⟸   ENSRNOT00000098884
Protein Domains
Helicase ATP-binding   Helicase C-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A0G9-F1-model_v2 AlphaFold D4A0G9 1-1230 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13701882
Promoter ID:EPDNEW_R12406
Type:single initiation site
Name:Ercc6l_1
Description:ERCC excision repair 6 like, spindle assembly checkpoint helicase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X72,034,092 - 72,034,152EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565734 AgrOrtholog
BioCyc Gene G2FUF-2081 BioCyc
Ensembl Genes ENSRNOG00000003208 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004310 ENTREZGENE
  ENSRNOT00000004310.7 UniProtKB/TrEMBL
  ENSRNOT00000098884.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.10810 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
InterPro DEAD-like_N UniProtKB/TrEMBL
  DNA/RNA_helicase_C UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  SNF2-like_sf UniProtKB/TrEMBL
  SNF2/RAD54-like_C UniProtKB/TrEMBL
  SNF2_N UniProtKB/TrEMBL
  TPR_repeat UniProtKB/TrEMBL
KEGG Report rno:317252 UniProtKB/TrEMBL
NCBI Gene 317252 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
PhenoGen Ercc6l PhenoGen
PROSITE HELICASE_ATP_BIND_1 UniProtKB/TrEMBL
  HELICASE_CTER UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003208 RatGTEx
SMART DEXDc UniProtKB/TrEMBL
  HELICc UniProtKB/TrEMBL
  TPR UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A0A8I6GF73 ENTREZGENE, UniProtKB/TrEMBL
  A6IQE3 ENTREZGENE, UniProtKB/TrEMBL
  D4A0G9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-01 Ercc6l  ERCC excision repair 6 like, spindle assembly checkpoint helicase  Ercc6l  excision repair cross-complementation group 6-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-03-12 Ercc6l  excision repair cross-complementation group 6-like  Ercc6l  excision repair cross-complementing rodent repair deficiency complementation group 6 - like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Ercc6l  excision repair cross-complementing rodent repair deficiency complementation group 6 - like  RGD1565734_predicted  similar to SNF2/RAD54 family protein (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1565734_predicted  similar to SNF2/RAD54 family protein (predicted)  LOC317252  similar to SNF2/RAD54 family protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC317252  similar to SNF2/RAD54 family protein      Symbol and Name status set to provisional 70820 PROVISIONAL