Apex2l1 (APEX nuclease (apurinic/apyrimidinic endonuclease) 2-like 1) - Rat Genome Database

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Gene: Apex2l1 (APEX nuclease (apurinic/apyrimidinic endonuclease) 2-like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Apex2l1
Name: APEX nuclease (apurinic/apyrimidinic endonuclease) 2-like 1
RGD ID: 1586200
Description: Predicted to enable DNA-(apurinic or apyrimidinic site) endonuclease activity; double-stranded DNA 3'-5' DNA exonuclease activity; and phosphoric diester hydrolase activity. Predicted to be involved in base-excision repair. Predicted to be located in mitochondrion. Predicted to be active in nucleus. Orthologous to human APEX2 (apurinic/apyrimidinic endodeoxyribonuclease 2).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: APEX nuclease (apurinic/apyrimidinic endonuclease) 2; Apex2; Apex2_mapped; apurinic/apyrimidinic endonuclease 2; apurinic/apyrimidinic endonuclease 2 (mapped); DNA-(apurinic or apyrimidinic site) lyase 2; DNA-(apurinic or apyrimidinic site) lyase 2-like
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81471,378,722 - 71,380,608 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1471,333,409 - 71,381,068 (-)EnsemblGRCr8
mRatBN7.21467,166,252 - 67,168,138 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1467,166,530 - 67,168,080 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1471,573,139 - 71,574,689 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01472,846,665 - 72,848,215 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01469,283,581 - 69,285,131 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01471,709,236 - 71,710,786 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1471,709,041 - 71,710,975 (-)Ensemblrn6Rnor6.0
Rnor_5.01471,740,222 - 71,741,772 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41472,314,446 - 72,315,996 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1466,124,584 - 66,126,134 (-)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA)
mitochondrion  (IEA)
nucleus  (IBA,IEA)

References

References - curated
# Reference Title Reference Citation
1. Growth retardation and dyslymphopoiesis accompanied by G2/M arrest in APEX2-null mice. Ide Y, etal., Blood 2004 Dec 15;104(13):4097-103. Epub .
2. A rapid and easy electrophoretic method for detecting biochemical loci of rat (Rattus norvegices). Nishikawa T and Nishimura M, Exp Anim 1996 Apr;45(2):189-94.
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in Apex2l1
6 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:85
Count of miRNA genes:66
Interacting mature miRNAs:68
Transcripts:ENSRNOT00000038157
Prediction methods:Microtar, Miranda, Rnahybrid
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
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143802371083023710Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1459848686104848686Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143900944484009444Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143123808072970315Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143067446985041098Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1433424686102238540Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143802371083023710Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1462398852107398852Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1460854936105854936Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1459848686104848686Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143802371083023710Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144261625899224555Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)146592028399224555Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143941117087582095Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143802371083023710Rat


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
nervous system
renal system
reproductive system
respiratory system
6 1 6 33 42 44 19 58 19 6 115 76 20 13 27 25

Sequence


Ensembl Acc Id: ENSRNOT00000038157
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1471,346,671 - 71,381,068 (-)Ensembl
mRatBN7.2 Ensembl1467,166,530 - 67,168,080 (-)Ensembl
Rnor_6.0 Ensembl1471,709,041 - 71,710,975 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000144142   ⟹   ENSRNOP00000101580
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1471,356,376 - 71,381,068 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000157668   ⟹   ENSRNOP00000098974
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1471,359,798 - 71,381,068 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000159992   ⟹   ENSRNOP00000101416
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1471,356,376 - 71,381,068 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000161590   ⟹   ENSRNOP00000101522
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1471,333,409 - 71,381,068 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000167391   ⟹   ENSRNOP00000099187
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1471,377,847 - 71,381,068 (-)Ensembl
RefSeq Acc Id: NM_001277396   ⟹   NP_001264325
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81471,378,722 - 71,380,608 (-)NCBI
mRatBN7.21467,166,252 - 67,168,138 (-)NCBI
Rnor_6.01471,709,236 - 71,710,786 (-)NCBI
Rnor_5.01471,740,222 - 71,741,772 (-)NCBI
Celera1466,124,584 - 66,126,134 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001264325 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000085746
  ENSRNOP00000085746.1
  ENSRNOP00000098974.1
  ENSRNOP00000099187.1
  ENSRNOP00000101416.1
  ENSRNOP00000101522.1
  ENSRNOP00000101580.1
RefSeq Acc Id: NP_001264325   ⟸   NM_001277396
- UniProtKB: A0A8I6A309 (UniProtKB/TrEMBL),   A6IJN8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000101522   ⟸   ENSRNOT00000161590
Ensembl Acc Id: ENSRNOP00000101580   ⟸   ENSRNOT00000144142
Ensembl Acc Id: ENSRNOP00000099187   ⟸   ENSRNOT00000167391
Ensembl Acc Id: ENSRNOP00000101416   ⟸   ENSRNOT00000159992
Ensembl Acc Id: ENSRNOP00000098974   ⟸   ENSRNOT00000157668
Protein Domains
Endonuclease/exonuclease/phosphatase   GRF-type

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:1586200 AgrOrtholog
BioCyc Gene G2FUF-15512 BioCyc
Ensembl Genes ENSRNOG00000026046 Ensembl
  ENSRNOG00000083941 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000038157 ENTREZGENE
  ENSRNOT00000038157.7 UniProtKB/TrEMBL
  ENSRNOT00000144142.1 UniProtKB/TrEMBL
  ENSRNOT00000157668.1 UniProtKB/TrEMBL
  ENSRNOT00000159992.1 UniProtKB/TrEMBL
  ENSRNOT00000161590.1 UniProtKB/TrEMBL
  ENSRNOT00000167391.1 UniProtKB/TrEMBL
Gene3D-CATH 3.60.10.10 UniProtKB/TrEMBL
InterPro AP_endonuc_1 UniProtKB/TrEMBL
  AP_endonuclease_F1_BS UniProtKB/TrEMBL
  Endo/exonu/phosph_ase_sf UniProtKB/TrEMBL
  Endo/exonuclease/phosphatase UniProtKB/TrEMBL
  Znf_GRF UniProtKB/TrEMBL
KEGG Report rno:289662 UniProtKB/TrEMBL
NCBI Gene 289662 ENTREZGENE
PANTHER DNA-(APURINIC OR APYRIMIDINIC SITE) ENDONUCLEASE 2 UniProtKB/TrEMBL
  PTHR22748 UniProtKB/TrEMBL
Pfam Exo_endo_phos UniProtKB/TrEMBL
  zf-GRF UniProtKB/TrEMBL
PhenoGen Apex2l1 PhenoGen
PROSITE AP_NUCLEASE_F1_1 UniProtKB/TrEMBL
  AP_NUCLEASE_F1_4 UniProtKB/TrEMBL
  ZF_GRF UniProtKB/TrEMBL
RatGTEx ENSRNOG00000026046 RatGTEx
  ENSRNOG00000083941 RatGTEx
Superfamily-SCOP SSF56219 UniProtKB/TrEMBL
UniProt A0A8I6A309 ENTREZGENE, UniProtKB/TrEMBL
  A6IJN8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-10-12 Apex2l1  APEX nuclease (apurinic/apyrimidinic endonuclease) 2-like 1  Apex2  APEX nuclease (apurinic/apyrimidinic endonuclease) 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-25 Apex2  APEX nuclease (apurinic/apyrimidinic endonuclease) 2  Apex2  apurinic/apyrimidinic endonuclease 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-04-12   apurinic/apyrimidinic endonuclease 2  Apex2  apurinic/apyrimidinic endonuclease 2 (mapped)  Name updated 737654 APPROVED
2007-04-10 Apex2  apurinic/apyrimidinic endonuclease 2 (mapped)  Apex2_mapped  apurinic/apyrimidinic endonuclease 2 (mapped)  Data merged from RGD:2127 737654 APPROVED
2006-11-19 Apex2  apurinic/apyrimidinic endonuclease 2 (mapped)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Apex2_mapped  apurinic/apyrimidinic endonuclease 2 (mapped)  Apex2  apurinic/apyrimidinic endonuclease 2  Symbol and Name updated 1556543 APPROVED
2002-06-10 Apex2  Apurinic/apyrimidinic endonuclease 2      Symbol and Name status set to approved 70586 APPROVED