Agr3 (anterior gradient 3, protein disulphide isomerase family member) - Rat Genome Database

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Gene: Agr3 (anterior gradient 3, protein disulphide isomerase family member) Rattus norvegicus
Analyze
Symbol: Agr3
Name: anterior gradient 3, protein disulphide isomerase family member
RGD ID: 1565406
Description: Predicted to enable dystroglycan binding activity. Predicted to be active in endoplasmic reticulum. Orthologous to human AGR3 (anterior gradient 3, protein disulphide isomerase family member); INTERACTS WITH 17beta-estradiol; 2,3,7,8-Tetrachlorodibenzofuran; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: anterior gradient 3; anterior gradient 3 homolog; anterior gradient 3 homolog (Xenopus laevis); anterior gradient homolog 3; anterior gradient homolog 3 (Xenopus laevis); anterior gradient protein 3; anterior gradient protein 3 homolog; LOC298959; RGD1565406; similar to LRRGT00057
RGD Orthologs
Human
Mouse
Bonobo
Squirrel
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8658,370,701 - 58,393,944 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl658,370,701 - 58,399,859 (+)EnsemblGRCr8
mRatBN7.2652,643,391 - 52,666,638 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl652,643,391 - 52,666,638 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx652,934,244 - 52,957,487 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0653,249,122 - 53,272,371 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0652,714,143 - 52,737,832 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0655,371,738 - 55,424,233 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl655,371,738 - 55,424,674 (+)Ensemblrn6Rnor6.0
Rnor_5.0665,037,906 - 65,039,747 (+)NCBIRnor_5.0Rnor_5.0rn5
Rnor_5.0664,991,885 - 65,002,140 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4654,629,032 - 54,652,276 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera651,790,107 - 51,813,358 (+)NCBICelera
Cytogenetic Map6q16NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
endoplasmic reticulum  (IBA,IEA,ISO)

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:12592373  


Genomics

Comparative Map Data
Agr3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8658,370,701 - 58,393,944 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl658,370,701 - 58,399,859 (+)EnsemblGRCr8
mRatBN7.2652,643,391 - 52,666,638 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl652,643,391 - 52,666,638 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx652,934,244 - 52,957,487 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0653,249,122 - 53,272,371 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0652,714,143 - 52,737,832 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0655,371,738 - 55,424,233 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl655,371,738 - 55,424,674 (+)Ensemblrn6Rnor6.0
Rnor_5.0665,037,906 - 65,039,747 (+)NCBIRnor_5.0Rnor_5.0rn5
Rnor_5.0664,991,885 - 65,002,140 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4654,629,032 - 54,652,276 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera651,790,107 - 51,813,358 (+)NCBICelera
Cytogenetic Map6q16NCBI
AGR3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38716,854,681 - 16,881,983 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl716,859,412 - 16,881,987 (-)Ensemblhg38GRCh38
GRCh37716,899,036 - 16,921,607 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36716,865,555 - 16,888,138 (-)NCBIBuild 36Build 36hg18NCBI36
Celera716,879,344 - 16,901,918 (-)NCBICelera
Cytogenetic Map7p21.1NCBI
HuRef716,786,053 - 16,808,610 (-)NCBIHuRef
CHM1_1716,899,906 - 16,922,400 (-)NCBICHM1_1
T2T-CHM13v2.0716,984,265 - 17,011,519 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2716,952,702 - 16,975,263 (-)NCBI
Agr3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391235,975,620 - 35,999,736 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1235,975,619 - 35,999,735 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381235,925,621 - 35,949,737 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1235,925,620 - 35,949,736 (+)Ensemblmm10GRCm38
MGSCv371236,652,208 - 36,676,317 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361236,435,959 - 36,459,996 (+)NCBIMGSCv36mm8
Celera1237,378,969 - 37,403,159 (+)NCBICelera
Cytogenetic Map12A3NCBI
cM Map1215.97NCBI
AGR3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2621,693,528 - 21,715,636 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1770,018,251 - 70,040,359 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0717,515,172 - 17,542,041 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1716,841,740 - 16,864,274 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl716,839,790 - 16,864,274 (-)EnsemblpanPan2panpan1.1
Agr3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511875,704,825 - 75,721,583 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365463,380,096 - 3,393,506 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365463,379,951 - 3,393,532 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
AGR3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12141,237,901 - 41,261,603 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2141,240,863 - 41,262,409 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604263,253,970 - 63,277,649 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Agr3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1749,189,702 - 49,215,585 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Agr3
191 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:34
Count of miRNA genes:32
Interacting mature miRNAs:34
Transcripts:ENSRNOT00000006652
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
9590290Uminl2Urine mineral level QTL 23.960.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)64451097489510974Rat
634318Bw118Body weight QTL 1183.55abdominal fat pad mass (VT:1000711)abdominal fat pad weight (CMO:0000088)63902865963457441Rat
4889933Bss88Bone structure and strength QTL 883.8tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)65368492198684921Rat
10401812Kidm54Kidney mass QTL 54kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)62009763565097635Rat
634307Bp141Blood pressure QTL 1414arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)64095756485957564Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)64515378690153786Rat
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
5684992Bmd83Bone mineral density QTL 824.8tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)65368492198684921Rat
1331779Rf38Renal function QTL 382.876kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)63118500276185002Rat
737827Hcar11Hepatocarcinoma resistance QTL 114.4liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)646050607116278722Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)64604735391047353Rat
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
9590140Scort4Serum corticosterone level QTL 414.490.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64451097489510974Rat
2301964Bp323Blood pressure QTL 3234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6186868070Rat
9590306Scort18Serum corticosterone level QTL 182.880.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64451097489510974Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)63332884178328841Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62661831486868070Rat
1641898Colcr4Colorectal carcinoma resistance QTL43.710.0007intestine integrity trait (VT:0010554)well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)63093763275937632Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)63332884178328841Rat
6893340Cm77Cardiac mass QTL 770.260.57heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)63902865986867923Rat
5684963Bss99Bone structure and strength QTL 993.1tibia area (VT:1000281)tibia area measurement (CMO:0001382)65368492198684921Rat
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
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)62228825767288257Rat
1300143Rf14Renal function QTL 142.92renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)64016318385163183Rat


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
sensory system
visual system
16 8 21 46 50 49 18 24 18 6 126 64 27 20 69 31 2 2

Sequence


Ensembl Acc Id: ENSRNOT00000006652   ⟹   ENSRNOP00000006652
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl658,370,701 - 58,394,055 (+)Ensembl
mRatBN7.2 Ensembl652,643,391 - 52,666,638 (+)Ensembl
Rnor_6.0 Ensembl655,371,738 - 55,424,233 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000091682   ⟹   ENSRNOP00000073372
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl655,374,984 - 55,424,674 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000172111   ⟹   ENSRNOP00000112241
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl658,370,701 - 58,399,859 (+)Ensembl
RefSeq Acc Id: NM_001106724   ⟹   NP_001100194
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8658,370,701 - 58,393,944 (+)NCBI
mRatBN7.2652,643,391 - 52,666,638 (+)NCBI
Rnor_6.0655,371,738 - 55,424,233 (+)NCBI
Rnor_5.0664,991,885 - 65,002,140 (+)NCBI
Rnor_5.0665,037,906 - 65,039,747 (+)NCBI
RGSC_v3.4654,629,032 - 54,652,276 (+)RGD
Celera651,790,107 - 51,813,358 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100194 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM03308 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000006652
  ENSRNOP00000006652.6
  ENSRNOP00000112241.1
RefSeq Acc Id: NP_001100194   ⟸   NM_001106724
- Peptide Label: precursor
- UniProtKB: D3ZIF1 (UniProtKB/TrEMBL),   A6HBA3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000006652   ⟸   ENSRNOT00000006652
Ensembl Acc Id: ENSRNOP00000073372   ⟸   ENSRNOT00000091682
Ensembl Acc Id: ENSRNOP00000112241   ⟸   ENSRNOT00000172111

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZIF1-F1-model_v2 AlphaFold D3ZIF1 1-165 view protein structure

Transcriptome

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

Promoters
RGD ID:13694557
Promoter ID:EPDNEW_R5082
Type:multiple initiation site
Name:Agr3_1
Description:anterior gradient 3, protein disulphide isomerase family member
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_6.0655,371,804 - 55,371,864EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565406 AgrOrtholog
BioCyc Gene G2FUF-37806 BioCyc
Ensembl Genes ENSRNOG00000004994 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006652 ENTREZGENE
  ENSRNOT00000006652.8 UniProtKB/TrEMBL
  ENSRNOT00000172111.1 UniProtKB/TrEMBL
Gene3D-CATH Glutaredoxin UniProtKB/TrEMBL
InterPro AGR/TXD UniProtKB/TrEMBL
  Thioredoxin-like_sf UniProtKB/TrEMBL
KEGG Report rno:298959 UniProtKB/TrEMBL
NCBI Gene 298959 ENTREZGENE
PANTHER ANTERIOR GRADIENT PROTEIN 3 UniProtKB/TrEMBL
  ANTERIOR GRADIENT PROTEIN-RELATED UniProtKB/TrEMBL
Pfam Thioredoxin_7 UniProtKB/TrEMBL
PhenoGen Agr3 PhenoGen
RatGTEx ENSRNOG00000004994 RatGTEx
Superfamily-SCOP Thiordxn-like_fd UniProtKB/TrEMBL
UniProt A0ABK0M8U5_RAT UniProtKB/TrEMBL
  A6HBA3 ENTREZGENE, UniProtKB/TrEMBL
  D3ZIF1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-09 Agr3  anterior gradient 3, protein disulphide isomerase family member  Agr3  anterior gradient 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-08-07 Agr3  anterior gradient 3  Agr3  anterior gradient 3 homolog (Xenopus laevis)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-12-06 Agr3  anterior gradient 3 homolog (Xenopus laevis)  Agr3  anterior gradient homolog 3 (Xenopus laevis)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Agr3  anterior gradient homolog 3 (Xenopus laevis)  RGD1565406_predicted  similar to LRRGT00057 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1565406_predicted  similar to LRRGT00057 (predicted)  LOC298959  similar to LRRGT00057  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC298959  similar to LRRGT00057      Symbol and Name status set to provisional 70820 PROVISIONAL