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
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88109,050,362 - 109,058,539 (+)NCBIGRCr8
mRatBN7.28100,172,038 - 100,179,218 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8100,172,104 - 100,178,569 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.08107,856,853 - 107,866,438 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8107,859,366 - 107,865,789 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08107,282,862 - 107,290,193 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48104,476,664 - 104,491,166 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera899,569,661 - 99,579,946 (+)NCBICelera
Cytogenetic Map8q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

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 (+)NCBIGRCr8
mRatBN7.28100,172,038 - 100,179,218 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8100,172,104 - 100,178,569 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.08107,856,853 - 107,866,438 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8107,859,366 - 107,865,789 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08107,282,862 - 107,290,193 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48104,476,664 - 104,491,166 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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 Ensembl3138,123,713 - 138,132,390 (-)EnsemblGRCh38hg38GRCh38
GRCh373137,842,555 - 137,851,232 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363139,325,756 - 139,333,897 (-)NCBINCBI36Build 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 Ensembl
GRCm38999,591,179 - 99,622,367 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl999,612,502 - 99,622,367 (+)EnsemblGRCm38mm10GRCm38
MGSCv37999,512,921 - 99,522,786 (+)NCBIGRCm37MGSCv37mm9NCBIm37
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 (+)EnsemblChiLan1.0
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 (-)Ensemblpanpan1.1panPan2
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2334,332,534 - 34,344,786 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02334,879,898 - 34,892,137 (-)NCBIROS_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_1.0
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 (-)EnsemblSpeTri2.0SpeTri2.0 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 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473014,634,378 - 14,640,070 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in A4gnt
111 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)830848259105647037Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
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
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
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
1300177Cm2Cardiac mass QTL 23.65heart mass (VT:0007028)heart weight (CMO:0000017)854259986100382532Rat
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
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
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
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
1578755Pur5Proteinuria QTL 53.30.0001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)830848154101699754Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)830848154101699754Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)830848154101699754Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088626Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
1358912Bw51Body weight QTL 512.95body mass (VT:0001259)body weight (CMO:0000012)851351728107062046Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat

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
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 reproductive system respiratory system
High
Medium 2
Low 1 5 12 1
Below cutoff 3 4 1 4 1 11 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000039690   ⟹   ENSRNOP00000029006
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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 ENSRNOP00000029006.4
Reference Protein Sequences
RefSeq 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 ENSRNOT00000039690.5 UniProtKB/TrEMBL
Gene3D-CATH 3.90.550.20 UniProtKB/TrEMBL
InterPro A1-4-GlycosylTfrase_dom 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