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

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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: 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
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8631,035,194 - 31,039,779 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl631,035,194 - 31,040,946 (-)EnsemblGRCr8
mRatBN7.2625,315,236 - 25,319,821 (-)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx625,615,952 - 25,620,625 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0625,931,821 - 25,936,493 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0625,410,819 - 25,415,405 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0626,680,628 - 26,685,185 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl626,680,598 - 26,685,235 (-)Ensemblrn6Rnor6.0
Rnor_5.0636,495,619 - 36,500,176 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4625,296,435 - 25,300,992 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera624,806,112 - 24,810,669 (-)NCBICelera
RGSC_v3.1625,299,388 - 25,303,931 (-)NCBI
Cytogenetic Map6q14NCBI
JBrowse:




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 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl631,035,194 - 31,040,946 (-)EnsemblGRCr8
mRatBN7.2625,315,236 - 25,319,821 (-)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx625,615,952 - 25,620,625 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0625,931,821 - 25,936,493 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0625,410,819 - 25,415,405 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0626,680,628 - 26,685,185 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl626,680,598 - 26,685,235 (-)Ensemblrn6Rnor6.0
Rnor_5.0636,495,619 - 36,500,176 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4625,296,435 - 25,300,992 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera624,806,112 - 24,810,669 (-)NCBICelera
RGSC_v3.1625,299,388 - 25,303,931 (-)NCBI
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 (+)Ensemblhg38GRCh38
GRCh37227,434,909 - 27,440,051 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36227,288,403 - 27,293,557 (+)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm38531,048,640 - 31,054,633 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl531,048,312 - 31,054,623 (+)Ensemblmm10GRCm38
MGSCv37531,351,013 - 31,356,996 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
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
ChiLan1.0 EnsemblNW_0049554699,194,593 - 9,205,514 (+)Ensembl
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 (+)EnsemblpanPan2panpan1.1
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1721,085,430 - 21,090,701 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01721,514,595 - 21,519,873 (+)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (-)EnsemblSpeTri2.0 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 (-)EnsemblsusScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247389,311,746 - 9,318,099 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Atraid
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1723,023,777 - 23,028,578 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Atraid
24 total Variants
miRNA Target Status (No longer updated)

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 (GRCr8)
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)6197587946975879Rat
10401812Kidm54Kidney mass QTL 54kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)62009763565097635Rat
8552910Pigfal5Plasma insulin-like growth factor 1 level QTL 54.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)62265388967653889Rat
10401800Kidm49Kidney mass QTL 49kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)62009763565097635Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6323998948239989Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6197587946975879Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6197587946975879Rat
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6144788383Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6197587946975879Rat
2292616Ept15Estrogen-induced pituitary tumorigenesis QTL 154.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)6144788383Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6197587946975879Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62661831486868070Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)620859430113082285Rat
2301964Bp323Blood pressure QTL 3234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6186868070Rat
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6323998948239989Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6323998948239989Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62661831486868070Rat
1300128Rf16Renal function QTL 163.89renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6140163351Rat
1641898Colcr4Colorectal carcinoma resistance QTL43.710.0007intestine integrity trait (VT:0010554)well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)63093763275937632Rat
70199Coreg1Compensatory renal growth QTL 111.8kidney mass (VT:0002707)compensatory renal growth score (CMO:0001894)61459947363457687Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)61608937261967788Rat
1358190Ept1Estrogen-induced pituitary tumorigenesis QTL 14.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)6144788383Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6323998948239989Rat
1359023Bp272Blood pressure QTL 2722.5arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)62228825732981219Rat
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)62228825767288257Rat


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 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000066743   ⟹   ENSRNOP00000062616
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl626,680,598 - 26,685,235 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000125867   ⟹   ENSRNOP00000111407
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl631,035,194 - 31,039,779 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000140466   ⟹   ENSRNOP00000101426
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl631,035,194 - 31,040,946 (-)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:
RefSeq Acc Id: NP_001120998   ⟸   NM_001127526
- Peptide Label: precursor
- UniProtKB: B2RYU3 (UniProtKB/TrEMBL),   A6HA86 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000062616   ⟸   ENSRNOT00000066743
Ensembl Acc Id: ENSRNOP00000111407   ⟸   ENSRNOT00000125867
Ensembl Acc Id: ENSRNOP00000101426   ⟸   ENSRNOT00000140466
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
  ENSRNOG00000087533 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000125867 ENTREZGENE
  ENSRNOT00000125867.1 UniProtKB/TrEMBL
  ENSRNOT00000140466.1 UniProtKB/TrEMBL
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
  ENSRNOG00000087533 RatGTEx
UniProt A0ABK0LIT8_RAT UniProtKB/TrEMBL
  A0ABK0M2U7_RAT UniProtKB/TrEMBL
  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