Atraid (all-trans retinoic acid-induced differentiation factor) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Atraid (all-trans retinoic acid-induced differentiation factor) Rattus norvegicus
Analyze
Symbol: Atraid
Name: all-trans retinoic acid-induced differentiation factor
RGD ID: 1311605
Description: Predicted to enable xenobiotic transmembrane transporter activity. Predicted to be involved in several processes, including negative regulation of osteoblast proliferation; positive regulation of osteoblast differentiation; and xenobiotic transmembrane transport. Predicted to be located in lysosomal membrane; nuclear envelope; and perinuclear region of cytoplasm. Predicted to be active in intracellular membrane-bounded organelle. Orthologous to human ATRAID (all-trans retinoic acid induced differentiation factor); INTERACTS WITH (+)-schisandrin B; 3-chloropropane-1,2-diol; acrylamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC298841; LOC298841; p18 protein; RGD1311605; similar to apoptosis related protein APR-3; uncharacterized protein LOC298841
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8631,035,194 - 31,039,779 (-)NCBIGRCr8
mRatBN7.2625,315,236 - 25,319,821 (-)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx625,615,952 - 25,620,625 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0625,931,821 - 25,936,493 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0625,410,819 - 25,415,405 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0626,680,628 - 26,685,185 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl626,680,598 - 26,685,235 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0636,495,619 - 36,500,176 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4625,296,435 - 25,300,992 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1625,299,388 - 25,303,931 (-)NCBI
Celera624,806,112 - 24,810,669 (-)NCBICelera
Cytogenetic Map6q14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:21723284   PMID:25839652  


Genomics

Comparative Map Data
Atraid
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8631,035,194 - 31,039,779 (-)NCBIGRCr8
mRatBN7.2625,315,236 - 25,319,821 (-)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx625,615,952 - 25,620,625 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0625,931,821 - 25,936,493 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0625,410,819 - 25,415,405 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0626,680,628 - 26,685,185 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl626,680,598 - 26,685,235 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0636,495,619 - 36,500,176 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4625,296,435 - 25,300,992 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1625,299,388 - 25,303,931 (-)NCBI
Celera624,806,112 - 24,810,669 (-)NCBICelera
Cytogenetic Map6q14NCBI
ATRAID
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38227,212,041 - 27,217,183 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl227,212,041 - 27,217,178 (+)EnsemblGRCh38hg38GRCh38
GRCh37227,434,909 - 27,440,051 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36227,288,403 - 27,293,557 (+)NCBINCBI36Build 36hg18NCBI36
Celera227,281,225 - 27,286,373 (+)NCBICelera
Cytogenetic Map2p23.3NCBI
HuRef227,176,604 - 27,181,752 (+)NCBIHuRef
CHM1_1227,364,803 - 27,369,951 (+)NCBICHM1_1
T2T-CHM13v2.0227,253,676 - 27,258,822 (+)NCBIT2T-CHM13v2.0
Atraid
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39531,205,984 - 31,211,977 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl531,205,656 - 31,211,967 (+)EnsemblGRCm39 Ensembl
GRCm38531,048,640 - 31,054,633 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl531,048,312 - 31,054,623 (+)EnsemblGRCm38mm10GRCm38
MGSCv37531,351,013 - 31,356,996 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36531,325,240 - 31,331,205 (+)NCBIMGSCv36mm8
Celera528,520,671 - 28,526,646 (+)NCBICelera
Cytogenetic Map5B1NCBI
cM Map516.94NCBI
Atraid
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554699,194,656 - 9,203,292 (+)NCBIChiLan1.0ChiLan1.0
ATRAID
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21299,295,952 - 99,301,260 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A99,299,919 - 99,305,096 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A27,213,556 - 27,218,552 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A27,301,175 - 27,306,294 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A27,301,175 - 27,306,294 (+)Ensemblpanpan1.1panPan2
ATRAID
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11721,193,685 - 21,198,897 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1721,193,909 - 21,198,718 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1721,085,430 - 21,090,701 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01721,514,595 - 21,519,873 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1721,514,879 - 21,541,837 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11721,201,349 - 21,206,629 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01721,212,426 - 21,217,698 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01721,259,309 - 21,264,580 (+)NCBIUU_Cfam_GSD_1.0
Atraid
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629265,501,434 - 65,506,414 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364935,333,169 - 5,338,116 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364935,333,151 - 5,338,157 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATRAID
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3111,914,708 - 111,919,946 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.13111,914,710 - 111,919,766 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23118,912,964 - 118,918,196 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ATRAID
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11480,399,298 - 80,404,539 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1480,399,513 - 80,404,280 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604531,750,835 - 31,755,984 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Atraid
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247389,311,836 - 9,317,861 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247389,311,746 - 9,318,099 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Atraid
19 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:157
Count of miRNA genes:118
Interacting mature miRNAs:137
Transcripts:ENSRNOT00000066743
Prediction methods:Microtar, 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
8552962Pigfal16Plasma insulin-like growth factor 1 level QTL 169.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)6141223769Rat
1549905Stresp10Stress response QTL 106.830.0066stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)6127574569Rat
10401812Kidm54Kidney mass QTL 54kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61436878859368788Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)6134235784Rat
2292589Emca10Estrogen-induced mammary cancer QTL 100.048mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)61653614061536140Rat
10401800Kidm49Kidney mass QTL 49kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61436878859368788Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449754641141Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6141223769Rat
1578758Tcas9Tongue tumor susceptibility QTL 93.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)6137618905Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)610894415110548006Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6141223769Rat
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6139036266Rat
738024Sach5Saccharine consumption QTL 53.90.00039consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)6143394190Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6141223769Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6141223769Rat
738023Alc17Alcohol consumption QTL 173.10.003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)6127574569Rat
1354616Despr12Despair related QTL 120.0012locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)6127574569Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)615107216107351382Rat
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6142487980Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6142487980Rat
7411584Foco4Food consumption QTL 44.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6142838846Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)61173566972593685Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat
2300176Bmd51Bone mineral density QTL 5111.70.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)6127574569Rat
1300128Rf16Renal function QTL 163.89renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449734434305Rat
1641898Colcr4Colorectal carcinoma resistance QTL43.710.0007intestine integrity trait (VT:0010554)well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)62033877762613667Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)61173566972593685Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6172227641Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6142487980Rat
1359023Bp272Blood pressure QTL 2722.5arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)61653614027261739Rat
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)61653614071636405Rat
2300190Bmd52Bone mineral density QTL 5211.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)6127574569Rat


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
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000066743   ⟹   ENSRNOP00000062616
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl626,680,598 - 26,685,235 (-)Ensembl
RefSeq Acc Id: NM_001127526   ⟹   NP_001120998
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8631,035,194 - 31,039,779 (-)NCBI
mRatBN7.2625,315,236 - 25,319,821 (-)NCBI
Rnor_6.0626,680,628 - 26,685,185 (-)NCBI
Rnor_5.0636,495,619 - 36,500,176 (-)NCBI
RGSC_v3.4625,296,435 - 25,300,992 (-)RGD
Celera624,806,112 - 24,810,669 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001120998 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI66904 (Get FASTA)   NCBI Sequence Viewer  
  EDM02940 (Get FASTA)   NCBI Sequence Viewer  
  EDM02941 (Get FASTA)   NCBI Sequence Viewer  
  EDM02942 (Get FASTA)   NCBI Sequence Viewer  
  EDM02943 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001120998   ⟸   NM_001127526
- Peptide Label: precursor
- UniProtKB: B2RYU3 (UniProtKB/TrEMBL),   A6HA86 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000062616   ⟸   ENSRNOT00000066743
Protein Domains
EGF-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B2RYU3-F1-model_v2 AlphaFold B2RYU3 1-226 view protein structure

Transcriptome

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

Promoters
RGD ID:13694450
Promoter ID:EPDNEW_R4973
Type:multiple initiation site
Name:Atraid_1
Description:all-trans retinoic acid-induced differentiation factor
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_6.0626,685,179 - 26,685,239EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311605 AgrOrtholog
BioCyc Gene G2FUF-38341 BioCyc
Ensembl Genes ENSRNOG00000006326 Ensembl
IMAGE_CLONE IMAGE:6887237 IMAGE-MGC_LOAD
InterPro ATRAID UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
KEGG Report rno:298841 UniProtKB/TrEMBL
MGC_CLONE MGC:188868 IMAGE-MGC_LOAD
NCBI Gene 298841 ENTREZGENE
PANTHER ALL-TRANS RETINOIC ACID-INDUCED DIFFERENTIATION FACTOR UniProtKB/TrEMBL
  PTHR15926 UniProtKB/TrEMBL
PhenoGen Atraid PhenoGen
PROSITE EGF_1 UniProtKB/TrEMBL
  EGF_2 UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000006326 RatGTEx
UniProt A6HA86 ENTREZGENE, UniProtKB/TrEMBL
  B2RYU3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-10-10 Atraid  all-trans retinoic acid-induced differentiation factor  RGD1311605  similar to apoptosis related protein APR-3; p18 protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1311605  similar to apoptosis related protein APR-3; p18 protein   RGD1311605_predicted  similar to apoptosis related protein APR-3; p18 protein (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1311605_predicted  similar to apoptosis related protein APR-3; p18 protein (predicted)  LOC298841_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC298841_predicted  similar to apoptosis related protein APR-3; p18 protein (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL