NEIL3 (nei like DNA glycosylase 3) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: NEIL3 (nei like DNA glycosylase 3) Sus scrofa
Analyze
Symbol: NEIL3
Name: nei like DNA glycosylase 3
RGD ID: 14231896
Description: ENCODES a protein that exhibits bubble DNA binding (inferred); catalytic activity (inferred); class I DNA-(apurinic or apyrimidinic site) endonuclease activity (inferred); INVOLVED IN base-excision repair (inferred); DNA damage response (inferred); DNA repair (inferred); ASSOCIATED WITH genetic disease (ortholog); hepatocellular carcinoma (ortholog); Neurodevelopmental Disorders (ortholog); FOUND IN nucleoplasm (inferred); nucleus (inferred); INTERACTS WITH 5-aza-2'-deoxycytidine; ochratoxin A
Type: protein-coding
RefSeq Status: MODEL
Previously known as: endonuclease 8-like 3; nei endonuclease VIII-like 3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1539,581,856 - 39,632,308 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11539,416,073 - 39,632,313 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21545,454,240 - 45,542,560 (+)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

Cellular Component
nucleoplasm  (IEA)
nucleus  (IBA,IEA)

References
Additional References at PubMed
PMID:14681463   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
NEIL3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1539,581,856 - 39,632,308 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11539,416,073 - 39,632,313 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21545,454,240 - 45,542,560 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NEIL3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384177,309,874 - 177,371,268 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4177,309,874 - 177,362,936 (+)EnsemblGRCh38hg38GRCh38
GRCh374178,231,028 - 178,284,090 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 364178,467,985 - 178,521,086 (+)NCBINCBI36Build 36hg18NCBI36
Build 344178,606,176 - 178,659,149NCBI
Celera4175,558,124 - 175,611,235 (+)NCBICelera
Cytogenetic Map4q34.3NCBI
HuRef4173,981,363 - 174,034,490 (+)NCBIHuRef
CHM1_14178,207,145 - 178,260,553 (+)NCBICHM1_1
T2T-CHM13v2.04180,648,665 - 180,701,747 (+)NCBIT2T-CHM13v2.0
Neil3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39854,039,902 - 54,092,100 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl854,039,902 - 54,092,100 (-)EnsemblGRCm39 Ensembl
GRCm38853,586,867 - 53,639,065 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl853,586,867 - 53,639,065 (-)EnsemblGRCm38mm10GRCm38
MGSCv37854,672,221 - 54,724,419 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36855,085,565 - 55,137,693 (-)NCBIMGSCv36mm8
Celera856,300,317 - 56,352,663 (-)NCBICelera
Cytogenetic Map8B1.3NCBI
cM Map829.14NCBI
Neil3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81645,091,401 - 45,151,419 (+)NCBIGRCr8
mRatBN7.21638,359,305 - 38,418,528 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1638,359,371 - 38,418,527 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1643,706,773 - 43,765,823 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01647,067,373 - 47,126,419 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01642,424,712 - 42,483,736 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01641,079,444 - 41,138,505 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1641,079,444 - 41,138,505 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01640,809,785 - 40,908,566 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41641,232,815 - 41,296,032 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11641,232,999 - 41,296,066 (+)NCBI
Celera1636,461,541 - 36,520,332 (+)NCBICelera
Cytogenetic Map16p11NCBI
Neil3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540330,549,740 - 30,591,821 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540330,549,779 - 30,591,757 (-)NCBIChiLan1.0ChiLan1.0
NEIL3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v23175,056,238 - 175,109,146 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan14175,420,093 - 175,472,838 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v04169,503,942 - 169,556,654 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14181,738,838 - 181,791,757 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4181,738,803 - 181,795,082 (+)Ensemblpanpan1.1panPan2
NEIL3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11652,383,585 - 52,472,398 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1652,387,389 - 52,436,173 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1647,883,197 - 47,966,699 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01654,692,820 - 54,776,914 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1654,698,978 - 54,746,494 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11652,588,158 - 52,672,461 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01653,183,765 - 53,268,294 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01653,420,999 - 53,505,487 (-)NCBIUU_Cfam_GSD_1.0
Neil3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494327,324,857 - 27,402,022 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365167,739,157 - 7,782,024 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365167,739,191 - 7,781,735 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NEIL3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.17123,408,582 - 123,462,475 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl7123,409,363 - 123,462,411 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037103,527,385 - 103,579,971 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Neil3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247698,448,226 - 8,480,439 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247698,436,526 - 8,480,336 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in NEIL3
4279 total Variants

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 hemolymphoid system nervous system renal system reproductive system respiratory system
High
Medium
Low 8 2 5 12 2 1 3
Below cutoff 1 1 3 9 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000017172   ⟹   ENSSSCP00000016711
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1539,581,856 - 39,632,308 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000066115   ⟹   ENSSSCP00000037646
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1539,581,908 - 39,632,310 (+)Ensembl
RefSeq Acc Id: XM_001926150   ⟹   XP_001926185
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11539,581,839 - 39,632,313 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013984008   ⟹   XP_013839462
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11539,540,941 - 39,632,313 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013984011   ⟹   XP_013839465
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11539,558,794 - 39,632,313 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021076035   ⟹   XP_020931694
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11539,416,073 - 39,632,313 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_020931694   ⟸   XM_021076035
- Peptide Label: isoform X2
- UniProtKB: A0A287BGY1 (UniProtKB/TrEMBL),   A0A4X1VX30 (UniProtKB/TrEMBL),   A0A480TMH8 (UniProtKB/TrEMBL),   A0A8D0P4M1 (UniProtKB/TrEMBL),   A0A8D1DB55 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013839462   ⟸   XM_013984008
- Peptide Label: isoform X2
- UniProtKB: A0A287BGY1 (UniProtKB/TrEMBL),   A0A4X1VX30 (UniProtKB/TrEMBL),   A0A480TMH8 (UniProtKB/TrEMBL),   A0A8D0P4M1 (UniProtKB/TrEMBL),   A0A8D1DB55 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013839465   ⟸   XM_013984011
- Peptide Label: isoform X3
- UniProtKB: A0A480KHS5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_001926185   ⟸   XM_001926150
- Peptide Label: isoform X1
- UniProtKB: F1RT18 (UniProtKB/TrEMBL),   A0A4X1VS65 (UniProtKB/TrEMBL),   A0A8D0P470 (UniProtKB/TrEMBL),   A0A8D0XGN7 (UniProtKB/TrEMBL),   A0A8D1DBF0 (UniProtKB/TrEMBL),   A0A8D0JDH2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000037646   ⟸   ENSSSCT00000066115
RefSeq Acc Id: ENSSSCP00000016711   ⟸   ENSSSCT00000017172
Protein Domains
Formamidopyrimidine-DNA glycosylase catalytic   FPG-type   GRF-type   RanBP2-type


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000015771 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005026424 UniProtKB/TrEMBL
  ENSSSCG00015052807 UniProtKB/TrEMBL
  ENSSSCG00025062205 UniProtKB/TrEMBL
  ENSSSCG00030053886 UniProtKB/TrEMBL
  ENSSSCG00035019919 UniProtKB/TrEMBL
  ENSSSCG00040008833 UniProtKB/TrEMBL
  ENSSSCG00045024608 UniProtKB/TrEMBL
  ENSSSCG00050032541 UniProtKB/TrEMBL
  ENSSSCG00055029519 UniProtKB/TrEMBL
  ENSSSCG00060008716 UniProtKB/TrEMBL
  ENSSSCG00065026026 UniProtKB/TrEMBL
  ENSSSCG00070027300 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000017172 ENTREZGENE
  ENSSSCT00000017172.3 UniProtKB/TrEMBL
  ENSSSCT00005041909.1 UniProtKB/TrEMBL
  ENSSSCT00005041928.1 UniProtKB/TrEMBL
  ENSSSCT00015070260.1 UniProtKB/TrEMBL
  ENSSSCT00015070392.1 UniProtKB/TrEMBL
  ENSSSCT00025085135.1 UniProtKB/TrEMBL
  ENSSSCT00025085278.1 UniProtKB/TrEMBL
  ENSSSCT00025085401.1 UniProtKB/TrEMBL
  ENSSSCT00030075095.1 UniProtKB/TrEMBL
  ENSSSCT00030075117.1 UniProtKB/TrEMBL
  ENSSSCT00035025837.1 UniProtKB/TrEMBL
  ENSSSCT00035025846.1 UniProtKB/TrEMBL
  ENSSSCT00040011466.1 UniProtKB/TrEMBL
  ENSSSCT00040011482.1 UniProtKB/TrEMBL
  ENSSSCT00040011495.1 UniProtKB/TrEMBL
  ENSSSCT00045041923.1 UniProtKB/TrEMBL
  ENSSSCT00045042034.1 UniProtKB/TrEMBL
  ENSSSCT00050043685.1 UniProtKB/TrEMBL
  ENSSSCT00050043693.1 UniProtKB/TrEMBL
  ENSSSCT00055058630.1 UniProtKB/TrEMBL
  ENSSSCT00055058664.1 UniProtKB/TrEMBL
  ENSSSCT00055058678.1 UniProtKB/TrEMBL
  ENSSSCT00060011180.1 UniProtKB/TrEMBL
  ENSSSCT00060011184.1 UniProtKB/TrEMBL
  ENSSSCT00065034924.1 UniProtKB/TrEMBL
  ENSSSCT00065034930.1 UniProtKB/TrEMBL
  ENSSSCT00070054762.1 UniProtKB/TrEMBL
  ENSSSCT00070054763.1 UniProtKB/TrEMBL
  ENSSSCT00070054764.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.8.50 UniProtKB/TrEMBL
  3.20.190.10 UniProtKB/TrEMBL
  Zn-finger domain of Sec23/24 UniProtKB/TrEMBL
InterPro DNA_glyclase/AP_lyase_DNA-bd UniProtKB/TrEMBL
  DNA_glyclase_Znf_dom_DNA_BS UniProtKB/TrEMBL
  FPG_cat UniProtKB/TrEMBL
  MutM-like_N-ter UniProtKB/TrEMBL
  Ribosomal_S13-like_H2TH UniProtKB/TrEMBL
  Znf_DNA_glyclase/AP_lyase UniProtKB/TrEMBL
  Znf_GRF UniProtKB/TrEMBL
  Znf_RanBP2 UniProtKB/TrEMBL
  Znf_RanBP2_sf UniProtKB/TrEMBL
KEGG Report ssc:100156631 UniProtKB/TrEMBL
NCBI Gene NEIL3 ENTREZGENE
PANTHER ENDONUCLEASE 8-LIKE 3 UniProtKB/TrEMBL
  FORMAMIDOPYRIMIDINE-DNA GLYCOSYLASE UniProtKB/TrEMBL
Pfam H2TH UniProtKB/TrEMBL
  zf-GRF UniProtKB/TrEMBL
  zf-RanBP UniProtKB/TrEMBL
PROSITE FPG_CAT UniProtKB/TrEMBL
  ZF_FPG_1 UniProtKB/TrEMBL
  ZF_FPG_2 UniProtKB/TrEMBL
  ZF_GRF UniProtKB/TrEMBL
  ZF_RANBP2_1 UniProtKB/TrEMBL
  ZF_RANBP2_2 UniProtKB/TrEMBL
SMART H2TH UniProtKB/TrEMBL
  ZnF_RBZ UniProtKB/TrEMBL
Superfamily-SCOP SSF46946 UniProtKB/TrEMBL
  SSF81624 UniProtKB/TrEMBL
  SSF90209 UniProtKB/TrEMBL
UniProt A0A287BGY1 ENTREZGENE, UniProtKB/TrEMBL
  A0A480KHS5 ENTREZGENE, UniProtKB/TrEMBL
  A0A480TMH8 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1VS65 ENTREZGENE
  A0A4X1VX30 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1VXT0_PIG UniProtKB/TrEMBL
  A0A8D0JDH2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0JDI2_PIG UniProtKB/TrEMBL
  A0A8D0P470 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0P4M1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0XE10_PIG UniProtKB/TrEMBL
  A0A8D0XGN7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1DB55 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1DB93_PIG UniProtKB/TrEMBL
  A0A8D1DBF0 ENTREZGENE, UniProtKB/TrEMBL
  F1RT18 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A4X1VS65 UniProtKB/TrEMBL
VGNC ID VGNC:96046 ENTREZGENE