Neil2 (nei-like DNA glycosylase 2) - Rat Genome Database

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Pathways
Gene: Neil2 (nei-like DNA glycosylase 2) Rattus norvegicus
Analyze
Symbol: Neil2
Name: nei-like DNA glycosylase 2
RGD ID: 1312033
Description: Predicted to enable microtubule binding activity. Predicted to be involved in base-excision repair. Predicted to be located in cytoplasm; mitotic spindle; and nucleoplasm. Predicted to be active in nucleus. Orthologous to human NEIL2 (nei like DNA glycosylase 2); PARTICIPATES IN base excision repair pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acetamide; aniline.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: endonuclease 8-like 2; endonuclease VIII-like 2; LOC305957; nei endonuclease VIII-like 2; nei endonuclease VIII-like 2 (E. coli); nei like 2; nei like 2 (E. coli)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81541,620,650 - 41,631,551 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1541,621,352 - 41,630,834 (-)EnsemblGRCr8
mRatBN7.21537,444,676 - 37,454,863 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1537,445,381 - 37,454,863 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1539,298,146 - 39,307,624 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01540,448,953 - 40,458,431 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01538,906,012 - 38,915,494 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01546,371,780 - 46,382,730 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1546,372,485 - 46,381,967 (-)Ensemblrn6Rnor6.0
Rnor_5.01550,136,574 - 50,147,493 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41542,458,573 - 42,468,055 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1537,129,707 - 37,139,189 (-)NCBICelera
RGSC_v3.11542,474,275 - 42,483,755 (-)NCBI
Cytogenetic Map15p12NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA,ISO)
microtubule cytoskeleton  (IEA,ISO)
mitotic spindle  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,IEA)

Molecular Pathway Annotations     Click to see Annotation Detail View
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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15725623   PMID:21145906  


Genomics

Comparative Map Data
Neil2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81541,620,650 - 41,631,551 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1541,621,352 - 41,630,834 (-)EnsemblGRCr8
mRatBN7.21537,444,676 - 37,454,863 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1537,445,381 - 37,454,863 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1539,298,146 - 39,307,624 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01540,448,953 - 40,458,431 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01538,906,012 - 38,915,494 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01546,371,780 - 46,382,730 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1546,372,485 - 46,381,967 (-)Ensemblrn6Rnor6.0
Rnor_5.01550,136,574 - 50,147,493 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41542,458,573 - 42,468,055 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1537,129,707 - 37,139,189 (-)NCBICelera
RGSC_v3.11542,474,275 - 42,483,755 (-)NCBI
Cytogenetic Map15p12NCBI
NEIL2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38811,769,710 - 11,787,345 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl811,769,639 - 11,787,345 (+)Ensemblhg38GRCh38
GRCh37811,627,219 - 11,644,854 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36811,664,666 - 11,682,263 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34811,664,665 - 11,682,263NCBI
Celera810,756,501 - 10,774,181 (+)NCBICelera
Cytogenetic Map8p23.1NCBI
HuRef810,558,132 - 10,575,813 (+)NCBIHuRef
CHM1_1811,692,655 - 11,710,334 (+)NCBICHM1_1
T2T-CHM13v2.087,952,965 - 7,970,597 (-)NCBIT2T-CHM13v2.0
Neil2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391463,419,888 - 63,431,604 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1463,419,892 - 63,431,305 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381463,182,439 - 63,194,154 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1463,182,443 - 63,193,856 (-)Ensemblmm10GRCm38
MGSCv371463,801,282 - 63,812,362 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361462,136,553 - 62,147,651 (-)NCBIMGSCv36mm8
Celera1460,946,177 - 60,957,258 (-)NCBICelera
Cytogenetic Map14D1NCBI
cM Map1433.24NCBI
Neil2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540353,037,743 - 53,048,723 (+)Ensembl
ChiLan1.0NW_00495540353,037,008 - 53,044,996 (+)NCBIChiLan1.0ChiLan1.0
NEIL2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2728,236,906 - 28,254,781 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan184,263,264 - 4,281,014 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v087,415,540 - 7,433,270 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
NEIL2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12526,102,652 - 26,117,418 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2526,103,111 - 26,117,544 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2526,759,198 - 26,773,955 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02526,256,928 - 26,271,720 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2526,255,873 - 26,271,718 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12526,203,051 - 26,224,786 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02526,106,578 - 26,121,344 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02526,258,078 - 26,272,833 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Neil2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049435,122,224 - 5,144,963 (-)NCBIHiC_Itri_2
NEIL2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1414,945,135 - 14,966,291 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11414,945,129 - 14,966,305 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21416,133,865 - 16,154,327 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NEIL2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.187,319,721 - 7,338,683 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl87,319,585 - 7,338,602 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605235,096,846 - 35,116,542 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Neil2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475825,325,480 - 25,333,233 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475825,324,115 - 25,334,009 (+)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Neil2
13 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:47
Count of miRNA genes:42
Interacting mature miRNAs:44
Transcripts:ENSRNOT00000014198
Prediction methods:Miranda, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15231575947315759Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15144836456Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15231575953331089Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)153185580392671517Rat
10755503Bp391Blood pressure QTL 3912.37arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)152272835342072050Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152852773273527732Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1525285835104695021Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)152233635152597086Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1525285835104695021Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151915576287086765Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15278592347785923Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)154046315285463152Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151492659471614418Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)152233635167336351Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1525285835104695021Rat

Markers in Region
D15Rat9  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21537,449,328 - 37,449,480 (+)MAPPERmRatBN7.2
Rnor_6.01546,376,433 - 46,376,584NCBIRnor6.0
Rnor_5.01550,141,227 - 50,141,378UniSTSRnor5.0
RGSC_v3.41542,462,520 - 42,462,672RGDRGSC3.4
RGSC_v3.41542,462,521 - 42,462,672UniSTSRGSC3.4
Celera1537,133,655 - 37,133,806UniSTS
RGSC_v3.11542,478,221 - 42,478,372RGD
RH 3.4 Map15267.5RGD
RH 3.4 Map15267.5UniSTS
RH 2.0 Map15232.7RGD
SHRSP x BN Map1531.2199RGD
Cytogenetic Map15p12UniSTS
RH144180  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21537,444,769 - 37,444,961 (+)MAPPERmRatBN7.2
Rnor_6.01546,371,874 - 46,372,065NCBIRnor6.0
Rnor_5.01550,136,668 - 50,136,859UniSTSRnor5.0
RGSC_v3.41542,457,962 - 42,458,153UniSTSRGSC3.4
Celera1537,129,096 - 37,129,287UniSTS
RH 3.4 Map15266.1UniSTS
Cytogenetic Map15p12UniSTS
AU047814  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21537,455,839 - 37,456,037 (+)MAPPERmRatBN7.2
Rnor_6.01546,382,944 - 46,383,141NCBIRnor6.0
Rnor_5.01550,147,738 - 50,147,935UniSTSRnor5.0
RGSC_v3.41542,469,032 - 42,469,229UniSTSRGSC3.4
Celera1537,140,167 - 37,140,364UniSTS
Cytogenetic Map15p12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 10 66 154 89 87 59 38 59 6 295 136 10 133 77 92 28 12 12

Sequence


Ensembl Acc Id: ENSRNOT00000014198   ⟹   ENSRNOP00000014198
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1541,621,352 - 41,630,834 (-)Ensembl
mRatBN7.2 Ensembl1537,445,381 - 37,454,863 (-)Ensembl
Rnor_6.0 Ensembl1546,372,485 - 46,381,967 (-)Ensembl
RefSeq Acc Id: NM_001107270   ⟹   NP_001100740
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81541,621,352 - 41,630,834 (-)NCBI
mRatBN7.21537,445,381 - 37,454,863 (-)NCBI
Rnor_6.01546,372,485 - 46,381,967 (-)NCBI
Rnor_5.01550,136,574 - 50,147,493 (-)NCBI
RGSC_v3.41542,458,573 - 42,468,055 (-)RGD
Celera1537,129,707 - 37,139,189 (-)RGD
Sequence:
RefSeq Acc Id: XM_017599694   ⟹   XP_017455183
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81541,620,650 - 41,629,163 (-)NCBI
mRatBN7.21537,444,676 - 37,451,674 (-)NCBI
Rnor_6.01546,371,780 - 46,382,730 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063274284   ⟹   XP_063130354
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81541,620,650 - 41,631,551 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001100740 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455183 (Get FASTA)   NCBI Sequence Viewer  
  XP_063130354 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL85318 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000014198
  ENSRNOP00000014198.4
RefSeq Acc Id: NP_001100740   ⟸   NM_001107270
- UniProtKB: D4ABX3 (UniProtKB/TrEMBL),   A6K6F8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017455183   ⟸   XM_017599694
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000014198   ⟸   ENSRNOT00000014198
RefSeq Acc Id: XP_063130354   ⟸   XM_063274284
- Peptide Label: isoform X2
- UniProtKB: A6K6F8 (UniProtKB/TrEMBL),   D4ABX3 (UniProtKB/TrEMBL)
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ABX3-F1-model_v2 AlphaFold D4ABX3 1-330 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1312033 AgrOrtholog
BioCyc Gene G2FUF-13436 BioCyc
Ensembl Genes ENSRNOG00000010696 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000014198 ENTREZGENE
  ENSRNOT00000014198.5 UniProtKB/TrEMBL
Gene3D-CATH 1.10.8.50 UniProtKB/TrEMBL
InterPro DNA_glyclase/AP_lyase_DNA-bd UniProtKB/TrEMBL
  DNA_glyclase/AP_lyase_Znf_dom UniProtKB/TrEMBL
  DNA_glycosylase/AP_lyase_cat UniProtKB/TrEMBL
  Ribosomal_S13-like_H2TH UniProtKB/TrEMBL
KEGG Report rno:305957 UniProtKB/TrEMBL
NCBI Gene 305957 ENTREZGENE
PANTHER ENDONUCLEASE 8-LIKE 2 UniProtKB/TrEMBL
  FORMAMIDOPYRIMIDINE-DNA GLYCOSYLASE UniProtKB/TrEMBL
Pfam H2TH UniProtKB/TrEMBL
PhenoGen Neil2 PhenoGen
PROSITE FPG_CAT UniProtKB/TrEMBL
  ZF_FPG_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000010696 RatGTEx
SMART H2TH UniProtKB/TrEMBL
Superfamily-SCOP Ribosomal_H2TH UniProtKB/TrEMBL
UniProt A6K6F8 ENTREZGENE, UniProtKB/TrEMBL
  D4ABX3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-01 Neil2  nei-like DNA glycosylase 2  Neil2  nei endonuclease VIII-like 2 (E. coli)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-08-02 Neil2  nei endonuclease VIII-like 2 (E. coli)  Neil2  nei like 2 (E. coli)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Neil2  nei like 2 (E. coli)   Neil2_predicted  nei like 2 (E. coli) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Neil2_predicted  nei like 2 (E. coli) (predicted)      Symbol and Name status set to approved 70820 APPROVED