Atrip (ATR interacting protein) - Rat Genome Database

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Gene: Atrip (ATR interacting protein) Rattus norvegicus
Analyze
Symbol: Atrip
Name: ATR interacting protein
RGD ID: 1626390
Description: Predicted to enable K63-linked polyubiquitin modification-dependent protein binding activity. Predicted to be involved in DNA repair. Predicted to be located in nucleoplasm. Predicted to be part of ATR-ATRIP complex. Orthologous to human ATRIP (ATR interacting protein); INTERACTS WITH 2-methoxyethanol; bisphenol A; trichloroethene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: ATR-interacting protein; ATR-interacting protein-like; LOC100911807; LOC301014
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
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
mRatBN7.28109,708,440 - 109,722,511 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8109,708,440 - 109,722,477 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8115,323,329 - 115,337,354 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.08113,522,503 - 113,536,528 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.08111,365,310 - 111,379,335 (-)NCBIRnor_WKY
Rnor_6.08117,797,954 - 117,811,989 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8117,797,842 - 117,811,975 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08117,149,699 - 117,163,734 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48114,073,321 - 114,087,356 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera8108,999,733 - 109,013,768 (-)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11721054   PMID:18162465   PMID:24332808  


Genomics

Comparative Map Data
Atrip
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28109,708,440 - 109,722,511 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8109,708,440 - 109,722,477 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8115,323,329 - 115,337,354 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.08113,522,503 - 113,536,528 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.08111,365,310 - 111,379,335 (-)NCBIRnor_WKY
Rnor_6.08117,797,954 - 117,811,989 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8117,797,842 - 117,811,975 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08117,149,699 - 117,163,734 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48114,073,321 - 114,087,356 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera8108,999,733 - 109,013,768 (-)NCBICelera
Cytogenetic Map8q32NCBI
ATRIP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38348,446,779 - 48,467,645 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl348,446,710 - 48,467,645 (+)EnsemblGRCh38hg38GRCh38
GRCh37348,488,183 - 48,509,044 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36348,463,222 - 48,482,058 (+)NCBINCBI36Build 36hg18NCBI36
Celera348,438,989 - 48,457,913 (+)NCBICelera
Cytogenetic Map3p21.31NCBI
HuRef348,542,265 - 48,561,084 (+)NCBIHuRef
CHM1_1348,440,399 - 48,459,354 (+)NCBICHM1_1
T2T-CHM13v2.0348,474,787 - 48,495,650 (+)NCBIT2T-CHM13v2.0
Gm53191
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399108,887,001 - 108,903,165 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9108,887,001 - 108,903,192 (-)EnsemblGRCm39 Ensembl
GRCm389109,057,933 - 109,074,097 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9109,057,933 - 109,074,124 (-)EnsemblGRCm38mm10GRCm38
MGSCv379108,962,261 - 108,976,638 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369108,917,155 - 108,931,517 (-)NCBIMGSCv36mm8
Celera9108,618,529 - 108,632,920 (-)NCBICelera
Cytogenetic Map9F2NCBI
Atrip
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955532516,753 - 533,498 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955532516,772 - 533,774 (+)NCBIChiLan1.0ChiLan1.0
ATRIP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1349,450,861 - 49,469,351 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl349,450,991 - 49,469,351 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0348,368,775 - 48,387,698 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
Atrip
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560263,484,606 - 63,503,959 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936529245,092 - 264,351 (+)EnsemblSpeTri2.0
SpeTri2.0NW_004936529245,134 - 264,456 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATRIP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1331,159,843 - 31,178,715 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11331,159,849 - 31,178,716 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21334,563,866 - 34,575,045 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ATRIP
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1229,849,439 - 9,869,654 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl229,849,570 - 9,869,553 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041157,221,552 - 157,242,316 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Atrip
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247302,413,014 - 2,430,827 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247302,413,474 - 2,431,012 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Atrip
30 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:66
Count of miRNA genes:57
Interacting mature miRNAs:62
Transcripts:ENSRNOT00000028055
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088624Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)871888757116888757Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)871888757116888757Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat

Markers in Region
BE101097  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28109,708,544 - 109,709,013 (+)MAPPERmRatBN7.2
Rnor_6.08117,798,059 - 117,798,527NCBIRnor6.0
Rnor_5.08117,149,804 - 117,150,272UniSTSRnor5.0
RGSC_v3.48114,073,426 - 114,073,894UniSTSRGSC3.4
Celera8108,999,838 - 109,000,306UniSTS
RH 3.4 Map81115.19UniSTS
Cytogenetic Map8q32UniSTS


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 20
Low 3 43 57 41 19 41 8 11 54 35 41 11 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000028055   ⟹   ENSRNOP00000028055
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8109,708,440 - 109,722,477 (-)Ensembl
Rnor_6.0 Ensembl8117,797,842 - 117,811,975 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000073395   ⟹   ENSRNOP00000066012
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8109,708,442 - 109,722,477 (-)Ensembl
Rnor_6.0 Ensembl8118,428,289 - 118,436,894 (-)Ensembl
RefSeq Acc Id: NM_001106859   ⟹   NP_001100329
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28109,708,440 - 109,722,477 (-)NCBI
Rnor_6.08117,797,954 - 117,811,989 (-)NCBI
Rnor_5.08117,149,699 - 117,163,734 (-)NCBI
RGSC_v3.48114,073,321 - 114,087,356 (-)RGD
Celera8108,999,733 - 109,013,768 (-)RGD
Sequence:
RefSeq Acc Id: XM_006243767   ⟹   XP_006243829
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28109,709,782 - 109,722,511 (-)NCBI
Rnor_6.08117,799,359 - 117,811,987 (-)NCBI
Rnor_5.08117,149,699 - 117,163,734 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039081241   ⟹   XP_038937169
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28109,709,807 - 109,722,511 (-)NCBI
RefSeq Acc Id: XM_039081242   ⟹   XP_038937170
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28109,709,782 - 109,722,511 (-)NCBI
RefSeq Acc Id: XM_039081243   ⟹   XP_038937171
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28109,709,820 - 109,722,511 (-)NCBI
RefSeq Acc Id: XM_039081244   ⟹   XP_038937172
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28109,713,170 - 109,722,511 (-)NCBI
RefSeq Acc Id: XM_039081245   ⟹   XP_038937173
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28109,709,347 - 109,722,511 (-)NCBI
RefSeq Acc Id: XR_005487797
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28109,709,372 - 109,722,511 (-)NCBI
RefSeq Acc Id: XR_005487798
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28109,709,378 - 109,722,511 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001100329   ⟸   NM_001106859
- UniProtKB: D4A4M3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006243829   ⟸   XM_006243767
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000028055   ⟸   ENSRNOT00000028055
RefSeq Acc Id: XP_038937173   ⟸   XM_039081245
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038937170   ⟸   XM_039081242
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038937169   ⟸   XM_039081241
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038937171   ⟸   XM_039081243
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038937172   ⟸   XM_039081244
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000066012   ⟸   ENSRNOT00000073395

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R950-F1-model_v2 AlphaFold M0R950 1-548 view protein structure
AF-D4A4M3-F1-model_v2 AlphaFold D4A4M3 1-784 view protein structure

Transcriptome

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

Promoters
RGD ID:13696321
Promoter ID:EPDNEW_R6846
Type:single initiation site
Name:Atrip_1
Description:ATR interacting protein
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_6.08117,811,986 - 117,812,046EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1626390 AgrOrtholog
BioCyc Gene G2FUF-29094 BioCyc
Ensembl Genes ENSRNOG00000020670 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000050492 Ensembl
Ensembl Protein ENSRNOP00000028055 ENTREZGENE
  ENSRNOP00000028055.6 UniProtKB/TrEMBL
  ENSRNOP00000066012 ENTREZGENE
  ENSRNOP00000066012.3 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000028055 ENTREZGENE
  ENSRNOT00000028055.7 UniProtKB/TrEMBL
  ENSRNOT00000073395 ENTREZGENE
  ENSRNOT00000073395.3 UniProtKB/TrEMBL
InterPro ARM-type_fold UniProtKB/TrEMBL
  ATRIP UniProtKB/TrEMBL
KEGG Report rno:301014 UniProtKB/TrEMBL
NCBI Gene 301014 ENTREZGENE
PANTHER PTHR28594 UniProtKB/TrEMBL
PhenoGen Atrip PhenoGen
Superfamily-SCOP SSF48371 UniProtKB/TrEMBL
UniProt D4A4M3 ENTREZGENE, UniProtKB/TrEMBL
  M0R950_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Atrip  ATR interacting protein  LOC100911807  ATR-interacting protein-like  Data Merged 737654 PROVISIONAL
2012-07-05 LOC100911807  ATR-interacting protein-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2007-09-18 Atrip  neural precursor cell expressed, developmentally down-regulated gene 4  LOC301014  ATR interacting protein  Symbol updated to reflect Human and Mouse nomenclature 1299863 PROVISIONAL
2007-08-04 LOC301014  ATR interacting protein      Symbol and Name status set to provisional 70820 PROVISIONAL