A4gnt (alpha-1,4-N-acetylglucosaminyltransferase) - Rat Genome Database

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Gene: A4gnt (alpha-1,4-N-acetylglucosaminyltransferase) Rattus norvegicus
Analyze
Symbol: A4gnt
Name: alpha-1,4-N-acetylglucosaminyltransferase
RGD ID: 1590210
Description: Predicted to enable acetylglucosaminyltransferase activity. Predicted to be involved in protein O-linked glycosylation. Predicted to act upstream of or within glycoprotein biosynthetic process and negative regulation of epithelial cell proliferation. Predicted to be located in Golgi membrane. Orthologous to human A4GNT (alpha-1,4-N-acetylglucosaminyltransferase); INTERACTS WITH trichloroethene; 2,3,7,8-tetrachlorodibenzodioxine (ortholog); 4-hydroxyphenyl retinamide (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC315951; LOC685758; similar to Alpha-1,4-N-acetylglucosaminyltransferase (Alpha4GnT)
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
GRCr88109,050,362 - 109,058,539 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8109,050,362 - 109,058,539 (+)EnsemblGRCr8
mRatBN7.28100,172,038 - 100,179,218 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8100,172,104 - 100,178,569 (+)EnsemblmRatBN7.2
Rnor_6.08107,856,853 - 107,866,438 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8107,859,366 - 107,865,789 (+)Ensemblrn6Rnor6.0
Rnor_5.08107,282,862 - 107,290,193 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48104,476,664 - 104,491,166 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera899,569,661 - 99,579,946 (+)NCBICelera
Cytogenetic Map8q31NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

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. Clinical utility of quantitative RT-PCR targeted to alpha1,4-N-acetylglucosaminyltransferase mRNA for detection of pancreatic cancer. Ishizone S, etal., Cancer Sci. 2006 Feb;97(2):119-26.
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:10430883   PMID:22307328  


Genomics

Comparative Map Data
A4gnt
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88109,050,362 - 109,058,539 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8109,050,362 - 109,058,539 (+)EnsemblGRCr8
mRatBN7.28100,172,038 - 100,179,218 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8100,172,104 - 100,178,569 (+)EnsemblmRatBN7.2
Rnor_6.08107,856,853 - 107,866,438 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8107,859,366 - 107,865,789 (+)Ensemblrn6Rnor6.0
Rnor_5.08107,282,862 - 107,290,193 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48104,476,664 - 104,491,166 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera899,569,661 - 99,579,946 (+)NCBICelera
Cytogenetic Map8q31NCBI
A4GNT
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383138,123,713 - 138,133,302 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3138,122,901 - 138,132,390 (-)Ensemblhg38GRCh38
GRCh373137,842,555 - 137,851,232 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363139,325,756 - 139,333,897 (-)NCBIBuild 36Build 36hg18NCBI36
Celera3136,267,340 - 136,276,009 (-)NCBICelera
Cytogenetic Map3q22.3NCBI
HuRef3135,217,324 - 135,225,993 (-)NCBIHuRef
CHM1_13137,806,379 - 137,815,048 (-)NCBICHM1_1
T2T-CHM13v2.03140,864,300 - 140,873,888 (-)NCBIT2T-CHM13v2.0
A4gnt
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39999,473,233 - 99,504,420 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl999,494,555 - 99,504,420 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38999,591,179 - 99,622,367 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl999,612,502 - 99,622,367 (+)Ensemblmm10GRCm38
MGSCv37999,512,921 - 99,522,786 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36999,421,854 - 99,431,719 (+)NCBIMGSCv36mm8
Celera999,148,870 - 99,158,739 (+)NCBICelera
Cytogenetic Map9E3.3NCBI
cM Map951.91NCBI
A4gnt
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955501881,851 - 887,639 (+)Ensembl
ChiLan1.0NW_004955501881,851 - 887,977 (+)NCBIChiLan1.0ChiLan1.0
A4GNT
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22136,028,637 - 136,037,305 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13136,033,366 - 136,042,034 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03135,151,027 - 135,159,692 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13142,602,475 - 142,610,835 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3142,602,475 - 142,610,835 (-)EnsemblpanPan2panpan1.1
A4GNT
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12334,339,955 - 34,352,204 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2334,341,628 - 34,348,068 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2334,332,534 - 34,344,786 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02334,879,898 - 34,892,137 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2334,880,571 - 34,888,069 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12334,561,786 - 34,574,038 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02334,627,173 - 34,639,418 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02334,878,243 - 34,890,497 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
A4gnt
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560273,739,415 - 73,744,589 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936540479,290 - 484,370 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936540479,290 - 484,370 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
A4GNT
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1378,923,681 - 78,932,504 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11378,921,212 - 78,932,575 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21386,522,225 - 86,529,461 (+)NCBISscrofa10.2Sscrofa10.2susScr3
A4GNT
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11552,407,272 - 52,417,129 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1552,410,321 - 52,416,867 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604125,422,500 - 25,431,991 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
A4gnt
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473014,634,480 - 14,640,070 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473014,634,378 - 14,640,070 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
A4gnt
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1890,955,560 - 90,963,880 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in A4gnt
47 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:34
Count of miRNA genes:34
Interacting mature miRNAs:34
Transcripts:ENSRNOT00000039690
Prediction methods: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
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)8105462581132782436Rat
1300177Cm2Cardiac mass QTL 23.65heart mass (VT:0007028)heart weight (CMO:0000017)863141536109261840Rat
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)882352698127352698Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)861019838121662124Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)849849908118871671Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)880768445125768445Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)880768445125768445Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)870041301121080908Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)868690349119799881Rat
10450865Bw175Body weight QTL 1754.1total fat pad mass (VT:0015008)adipose tissue molecular composition measurement (CMO:0000484)884192326129192326Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)8102413464132782436Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8103375781129871912Rat
71120Niddm21Non-insulin dependent diabetes mellitus QTL 213.73blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)866992095111992095Rat
8693654Alc32Alcohol consumption QTL 3220.755drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)897492344116428905Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)855428333127966348Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)839106363114525825Rat
634332Pia18Pristane induced arthritis QTL 184joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)884192326132782436Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)885348065130348065Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)879394435132782436Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)898145073122898010Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)880768445125768445Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)880768445125768445Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)891340911131690273Rat

Markers in Region
BM383234  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28100,178,830 - 100,179,000 (+)MAPPERmRatBN7.2
Rnor_6.08107,866,051 - 107,866,220NCBIRnor6.0
Rnor_5.08107,289,806 - 107,289,975UniSTSRnor5.0
RGSC_v3.48104,491,428 - 104,491,597UniSTSRGSC3.4
Celera899,579,559 - 99,579,728UniSTS
RH 3.4 Map81051.4UniSTS
Cytogenetic Map8q31UniSTS


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
16 1 9 44 31 35 7 81 7 6 141 106 4 29 12 33 28

Sequence


Ensembl Acc Id: ENSRNOT00000039690   ⟹   ENSRNOP00000029006
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl8109,050,362 - 109,058,539 (+)Ensembl
mRatBN7.2 Ensembl8100,172,104 - 100,178,569 (+)Ensembl
Rnor_6.0 Ensembl8107,859,366 - 107,865,789 (+)Ensembl
RefSeq Acc Id: NM_001426915   ⟹   NP_001413844
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88109,050,362 - 109,058,539 (+)NCBI
RefSeq Acc Id: XM_063266148   ⟹   XP_063122218
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88109,051,234 - 109,058,539 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001413844 (Get FASTA)   NCBI Sequence Viewer  
  XP_063122218 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL77436 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000029006
  ENSRNOP00000029006.4
Ensembl Acc Id: ENSRNOP00000029006   ⟸   ENSRNOT00000039690
RefSeq Acc Id: NP_001413844   ⟸   NM_001426915
- UniProtKB: A6I2E1 (UniProtKB/TrEMBL),   D3ZG90 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063122218   ⟸   XM_063266148
- Peptide Label: isoform X1
- UniProtKB: A6I2E1 (UniProtKB/TrEMBL),   D3ZG90 (UniProtKB/TrEMBL)
Protein Domains
Alpha 1,4-glycosyltransferase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZG90-F1-model_v2 AlphaFold D3ZG90 1-342 view protein structure

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:1590210 AgrOrtholog
BioCyc Gene G2FUF-29390 BioCyc
Ensembl Genes ENSRNOG00000042649 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000039690 ENTREZGENE
  ENSRNOT00000039690.6 UniProtKB/TrEMBL
Gene3D-CATH 3.90.550.20 UniProtKB/TrEMBL
InterPro A1-4-GlycosylTfrase_dom UniProtKB/TrEMBL
  Glycosyltransf_32 UniProtKB/TrEMBL
  GlycoTrfase_DXD_sugar-bd_CS UniProtKB/TrEMBL
  Nucleotide-diphossugar_trans UniProtKB/TrEMBL
NCBI Gene 685758 ENTREZGENE
PANTHER ALPHA-1,4-N-ACETYLGLUCOSAMINYLTRANSFERASE UniProtKB/TrEMBL
  LACTOSYLCERAMIDE 4-ALPHA-GALACTOSYLTRANSFERASE ALPHA- 1,4-GALACTOSYLTRANSFERASE UniProtKB/TrEMBL
Pfam Gb3_synth UniProtKB/TrEMBL
  Gly_transf_sug UniProtKB/TrEMBL
PhenoGen A4gnt PhenoGen
PROSITE PROKAR_LIPOPROTEIN UniProtKB/TrEMBL
RatGTEx ENSRNOG00000042649 RatGTEx
Superfamily-SCOP SSF53448 UniProtKB/TrEMBL
UniProt A6I2E1 ENTREZGENE, UniProtKB/TrEMBL
  D3ZG90 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-05 A4gnt  alpha-1,4-N-acetylglucosaminyltransferase  LOC685758  similar to Alpha-1,4-N-acetylglucosaminyltransferase (Alpha4GnT)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC685758  similar to Alpha-1,4-N-acetylglucosaminyltransferase (Alpha4GnT)  RGD1310265_predicted  similar to Alpha-1,4-N-acetylglucosaminyltransferase (Alpha4GnT) (predicted)  Data merged from RGD:1310265 1643240 APPROVED
2006-11-20 LOC685758  similar to Alpha-1,4-N-acetylglucosaminyltransferase (Alpha4GnT)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-20 RGD1310265_predicted  similar to Alpha-1,4-N-acetylglucosaminyltransferase (Alpha4GnT) (predicted)  LOC315951_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC315951_predicted  similar to Alpha-1,4-N-acetylglucosaminyltransferase (Alpha4GnT) (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL