Pomgnt1 (protein O-linked mannose N-acetylglucosaminyltransferase 1 (beta 1,2-)) - Rat Genome Database

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Gene: Pomgnt1 (protein O-linked mannose N-acetylglucosaminyltransferase 1 (beta 1,2-)) Rattus norvegicus
Analyze
Symbol: Pomgnt1
Name: protein O-linked mannose N-acetylglucosaminyltransferase 1 (beta 1,2-)
RGD ID: 1359396
Description: Predicted to enable beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase activity and manganese ion binding activity. Predicted to be involved in O-glycan processing. Predicted to act upstream of or within several processes, including nervous system development; protein O-linked mannosylation; and reactive gliosis. Predicted to be located in Golgi membrane. Human ortholog(s) of this gene implicated in lissencephaly; muscular dystrophy (multiple); and retinitis pigmentosa. Orthologous to human POMGNT1 (protein O-linked mannose N-acetylglucosaminyltransferase 1 (beta 1,2-)); PARTICIPATES IN O-linked glycan biosynthetic pathway; INTERACTS WITH 2,4-dinitrotoluene; 3,4-methylenedioxymethamphetamine; 4-amino-2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: MGC94463; O-linked mannose beta1,2-N-acetylglucosaminyltransferase; protein O-linked-mannose beta-1,2-N-acetylglucosaminyltransferase 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85134,870,971 - 134,880,864 (+)NCBIGRCr8
mRatBN7.25129,634,274 - 129,644,150 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5129,634,294 - 129,644,149 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5132,250,551 - 132,260,368 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05134,005,138 - 134,014,956 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05134,027,575 - 134,037,392 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05135,007,343 - 135,017,220 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5135,007,343 - 135,017,218 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05138,791,235 - 138,801,112 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45136,429,379 - 136,439,254 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15136,434,604 - 136,444,480 (+)NCBI
Celera5128,162,654 - 128,172,461 (+)NCBICelera
Cytogenetic Map5q35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
Golgi membrane  (IBA,IEA,ISO,ISS)
membrane  (ISO,ISS)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. POMGnT1 mutations in congenital muscular dystrophy: genotype-phenotype correlation and expanded clinical spectrum. Biancheri R, etal., Arch Neurol. 2006 Oct;63(10):1491-5.
2. Molecular heterogeneity in fetal forms of type II lissencephaly. Bouchet C, etal., Hum Mutat. 2007 Oct;28(10):1020-7.
3. 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.
4. Novel POMGnT1 mutations cause muscle-eye-brain disease in Chinese patients. Jiao H, etal., Mol Genet Genomics. 2013 Aug;288(7-8):297-308. doi: 10.1007/s00438-013-0749-5. Epub 2013 May 21.
5. Breaches of the pial basement membrane are associated with defective dentate gyrus development in mouse models of congenital muscular dystrophies. Li J, etal., Neurosci Lett. 2011 Nov 7;505(1):19-24. doi: 10.1016/j.neulet.2011.09.040. Epub 2011 Sep 29.
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. GOA pipeline RGD automated data pipeline
10. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. Comprehensive gene review and curation RGD comprehensive gene curation
13. Novel POMGNT1 point mutations and intragenic rearrangements associated with muscle-eye-brain disease. Saredi S, etal., J Neurol Sci. 2012 Jul 15;318(1-2):45-50. doi: 10.1016/j.jns.2012.04.008. Epub 2012 May 2.
14. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
15. POMGnT1 gene alterations in a family with neurological abnormalities. Vervoort VS, etal., Ann Neurol. 2004 Jul;56(1):143-8.
16. Muscular dystrophy and neuronal migration disorder caused by mutations in a glycosyltransferase, POMGnT1. Yoshida A, etal., Dev Cell 2001 Nov;1(5):717-24.
Additional References at PubMed
PMID:11742540   PMID:15489334   PMID:16458488   PMID:17034757   PMID:26908613   PMID:27391550   PMID:27493216  


Genomics

Comparative Map Data
Pomgnt1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85134,870,971 - 134,880,864 (+)NCBIGRCr8
mRatBN7.25129,634,274 - 129,644,150 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5129,634,294 - 129,644,149 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5132,250,551 - 132,260,368 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05134,005,138 - 134,014,956 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05134,027,575 - 134,037,392 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05135,007,343 - 135,017,220 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5135,007,343 - 135,017,218 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05138,791,235 - 138,801,112 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45136,429,379 - 136,439,254 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15136,434,604 - 136,444,480 (+)NCBI
Celera5128,162,654 - 128,172,461 (+)NCBICelera
Cytogenetic Map5q35NCBI
POMGNT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38146,188,683 - 46,220,305 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl146,188,683 - 46,220,305 (-)EnsemblGRCh38hg38GRCh38
GRCh37146,654,355 - 46,685,977 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36146,426,940 - 46,436,708 (-)NCBINCBI36Build 36hg18NCBI36
Celera144,941,643 - 44,973,721 (-)NCBICelera
Cytogenetic Map1p34.1NCBI
HuRef144,769,330 - 44,801,277 (-)NCBIHuRef
CHM1_1146,771,477 - 46,803,118 (-)NCBICHM1_1
T2T-CHM13v2.0146,065,903 - 46,097,522 (-)NCBIT2T-CHM13v2.0
Pomgnt1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394116,007,700 - 116,017,041 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4115,981,037 - 116,017,046 (+)EnsemblGRCm39 Ensembl
GRCm384116,150,498 - 116,159,844 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4116,123,840 - 116,159,849 (+)EnsemblGRCm38mm10GRCm38
MGSCv374115,823,123 - 115,832,449 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364115,648,457 - 115,657,776 (+)NCBIMGSCv36mm8
Celera4114,888,693 - 114,898,002 (+)NCBICelera
Cytogenetic Map4D1NCBI
cM Map453.1NCBI
Pomgnt1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546412,077,406 - 12,086,700 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495546412,076,815 - 12,086,961 (+)NCBIChiLan1.0ChiLan1.0
POMGNT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21180,584,412 - 180,616,625 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11179,726,026 - 179,758,221 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0145,494,834 - 45,525,804 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1146,849,528 - 46,859,137 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl146,849,528 - 46,859,137 (-)Ensemblpanpan1.1panPan2
POMGNT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11514,176,932 - 14,187,181 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1514,178,357 - 14,187,161 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1514,299,079 - 14,309,089 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01514,329,378 - 14,339,540 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1514,329,801 - 14,339,540 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11514,130,602 - 14,140,611 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01514,199,089 - 14,209,095 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01514,268,643 - 14,278,728 (+)NCBIUU_Cfam_GSD_1.0
Pomgnt1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505861,404,486 - 61,417,843 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647427,229,113 - 27,239,123 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647427,229,262 - 27,239,034 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
POMGNT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6165,212,833 - 165,222,409 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16165,212,828 - 165,222,412 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26152,692,300 - 152,701,877 (+)NCBISscrofa10.2Sscrofa10.2susScr3
POMGNT1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12086,588,049 - 86,597,576 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2086,588,550 - 86,599,107 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603330,389,152 - 30,398,705 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pomgnt1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249062,119,684 - 2,135,656 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249062,120,759 - 2,131,024 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pomgnt1
39 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:83
Count of miRNA genes:66
Interacting mature miRNAs:82
Transcripts:ENSRNOT00000035312
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531663789131345958Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535189153141643988Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)550328551141643988Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555805606132207589Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)559793399143070159Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)569540295151018848Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
7411601Foco12Food consumption QTL 1219.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)587468046132468046Rat
7411564Bw135Body weight QTL 1350.001body mass (VT:0001259)body weight gain (CMO:0000420)587468046132468046Rat
7411582Foco3Food consumption QTL 37.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)587468046132468046Rat
6903316Bw113Body weight QTL 11320.0103body mass (VT:0001259)body weight (CMO:0000012)587765973132765973Rat
631527Tls1T-lymphoma susceptibility QTL 100.001thymus integrity trait (VT:0010555)post-insult time to onset of T-cell lymphoma (CMO:0001907)590450144135450144Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)594858972143070159Rat
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)597059760147465714Rat
2317753Glom24Glomerulus QTL 243.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)597570330136479578Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)599216724148607142Rat
1578673Bmd13Bone mineral density QTL 134.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)5103689353148689353Rat
2317056Wbc3White blood cell count QTL 32.510.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)5105999803150999803Rat
7207488Bss110Bone structure and strength QTL 18.4femur strength trait (VT:0010010)femur stiffness (CMO:0001674)5106906205151906205Rat
7207491Bss112Bone structure and strength QTL 1127femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)5106906205151906205Rat
7207481Bss106Bone structure and strength QTL 1067.9femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5106906205151906205Rat
7207486Bss109Bone structure and strength QTL 109femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)5106906205151906205Rat
1549838Bss4Bone structure and strength QTL 49.2femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)5106906205151906205Rat
1298089Scl14Serum cholesterol level QTL 145.80.0004blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5108845856153845856Rat
1598847Cm62Cardiac mass QTL 623.4heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5108845856153845856Rat
8657050Bw146Body weight QTL 14619.840.001body mass (VT:0001259)body weight gain (CMO:0000420)5108938288153938288Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5111416838156416838Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5111416838156416838Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5111416838156416838Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5111416838156416838Rat
1581510Cm54Cardiac mass QTL 543.40.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)5120740824143608494Rat
2293642Bss37Bone structure and strength QTL 374.640.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5120740824151018848Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
7394710Emca12Estrogen-induced mammary cancer QTL 12mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)5124160767133749643Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat
1300122Wbc1White blood cell count QTL 12.75leukocyte quantity (VT:0000217)total white blood cell count (CMO:0000365)5125392826139989768Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
1581505Rf54Renal function QTL 54kidney physiology trait (VT:0002136)kidney 20-HETE level (CMO:0001854)5128033842133011550Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
1331803Rf32Renal function QTL 322.798kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)5129132428143070159Rat
70156Niddm30Non-insulin dependent diabetes mellitus QTL 303.98blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)5129132447151006154Rat

Markers in Region
MARC_7377-7378:992008389:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25129,639,150 - 129,639,535 (+)MAPPERmRatBN7.2
Rnor_6.05135,012,219 - 135,012,603NCBIRnor6.0
Rnor_5.05138,796,111 - 138,796,495UniSTSRnor5.0
RGSC_v3.45136,434,255 - 136,434,639UniSTSRGSC3.4
Celera5128,167,462 - 128,167,846UniSTS
Cytogenetic Map5q36UniSTS


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 integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 37 48 32 19 32 8 11 74 35 41 11 8
Low 6 9 9 9
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000035312   ⟹   ENSRNOP00000035825
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5129,634,301 - 129,644,015 (+)Ensembl
Rnor_6.0 Ensembl5135,007,343 - 135,017,218 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000098939   ⟹   ENSRNOP00000091939
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5129,634,306 - 129,644,132 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000101655   ⟹   ENSRNOP00000093130
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5129,634,306 - 129,644,132 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000107786   ⟹   ENSRNOP00000088565
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5129,635,186 - 129,644,132 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000108219   ⟹   ENSRNOP00000084795
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5129,634,294 - 129,644,149 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109490   ⟹   ENSRNOP00000095021
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5129,635,186 - 129,644,132 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000115433   ⟹   ENSRNOP00000093579
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5129,634,306 - 129,644,132 (+)Ensembl
RefSeq Acc Id: NM_001007747   ⟹   NP_001007748
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85134,870,989 - 134,880,864 (+)NCBI
mRatBN7.25129,634,274 - 129,644,150 (+)NCBI
Rnor_6.05135,007,343 - 135,017,218 (+)NCBI
Rnor_5.05138,791,235 - 138,801,112 (+)NCBI
RGSC_v3.45136,429,379 - 136,439,254 (+)RGD
Celera5128,162,654 - 128,172,461 (+)RGD
Sequence:
RefSeq Acc Id: XM_006238683   ⟹   XP_006238745
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85134,871,821 - 134,880,864 (+)NCBI
mRatBN7.25129,635,091 - 129,644,150 (+)NCBI
Rnor_6.05135,008,072 - 135,017,220 (+)NCBI
Rnor_5.05138,791,235 - 138,801,112 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063287979   ⟹   XP_063144049
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85134,870,971 - 134,880,864 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001007748   ⟸   NM_001007747
- UniProtKB: Q5XIN7 (UniProtKB/Swiss-Prot),   A0A8L2QK62 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006238745   ⟸   XM_006238683
- Peptide Label: isoform X2
- UniProtKB: A0A8I6AMP8 (UniProtKB/TrEMBL),   A6JZ66 (UniProtKB/TrEMBL),   A0A8L2QK62 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000035825   ⟸   ENSRNOT00000035312
RefSeq Acc Id: ENSRNOP00000093130   ⟸   ENSRNOT00000101655
RefSeq Acc Id: ENSRNOP00000095021   ⟸   ENSRNOT00000109490
RefSeq Acc Id: ENSRNOP00000088565   ⟸   ENSRNOT00000107786
RefSeq Acc Id: ENSRNOP00000091939   ⟸   ENSRNOT00000098939
RefSeq Acc Id: ENSRNOP00000093579   ⟸   ENSRNOT00000115433
RefSeq Acc Id: ENSRNOP00000084795   ⟸   ENSRNOT00000108219
RefSeq Acc Id: XP_063144049   ⟸   XM_063287979
- Peptide Label: isoform X1
- UniProtKB: Q5XIN7 (UniProtKB/Swiss-Prot)
Protein Domains
GG-type lectin   ILEI/PANDER

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5XIN7-F1-model_v2 AlphaFold Q5XIN7 1-660 view protein structure

Transcriptome

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

Promoters
RGD ID:13693930
Promoter ID:EPDNEW_R4455
Type:initiation region
Name:Pomgnt1_1
Description:protein O-linked mannose N-acetylglucosaminyltransferase 1 (beta1,2-)
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_6.05135,007,329 - 135,007,389EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359396 AgrOrtholog
BioCyc Gene G2FUF-40263 BioCyc
BioCyc Pathway PWY-7922 [protein O-mannosylation II (mammals, core M1 and core M2)] BioCyc
BioCyc Pathway Image PWY-7922 BioCyc
Ensembl Genes ENSRNOG00000023455 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000035312 ENTREZGENE
  ENSRNOT00000035312.6 UniProtKB/TrEMBL
  ENSRNOT00000098939.1 UniProtKB/TrEMBL
  ENSRNOT00000101655.1 UniProtKB/TrEMBL
  ENSRNOT00000107786.1 UniProtKB/TrEMBL
  ENSRNOT00000108219.1 UniProtKB/TrEMBL
  ENSRNOT00000109490.1 UniProtKB/TrEMBL
  ENSRNOT00000115433.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7134894 IMAGE-MGC_LOAD
InterPro Glyco_trans_13 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ILEI/PANDER_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleotide-diphossugar_trans UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  POMGNT1_PANDER-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:362567 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94463 IMAGE-MGC_LOAD
NCBI Gene 362567 ENTREZGENE
PANTHER PROTEIN O-LINKED-MANNOSE BETA-1,2-N-ACETYLGLUCOSAMINYLTRANSFERASE 1 UniProtKB/Swiss-Prot
  PROTEIN O-LINKED-MANNOSE BETA-1,2-N-ACETYLGLUCOSAMINYLTRANSFERASE 1 UniProtKB/Swiss-Prot
  PROTEIN O-LINKED-MANNOSE BETA-1,2-N-ACETYLGLUCOSAMINYLTRANSFERASE 1 UniProtKB/TrEMBL
  PROTEIN O-LINKED-MANNOSE BETA-1,2-N-ACETYLGLUCOSAMINYLTRANSFERASE 1 UniProtKB/TrEMBL
Pfam GNT-I UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ILEI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pomgnt1 PhenoGen
PROSITE GG_LECTIN UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000023455 RatGTEx
Superfamily-SCOP SSF53448 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6A0W0_RAT UniProtKB/TrEMBL
  A0A8I6AB13_RAT UniProtKB/TrEMBL
  A0A8I6AGM8_RAT UniProtKB/TrEMBL
  A0A8I6AHV0_RAT UniProtKB/TrEMBL
  A0A8I6AJ46_RAT UniProtKB/TrEMBL
  A0A8I6AMP8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2QK62 ENTREZGENE, UniProtKB/TrEMBL
  A6JZ64_RAT UniProtKB/TrEMBL
  A6JZ65_RAT UniProtKB/TrEMBL
  A6JZ66 ENTREZGENE, UniProtKB/TrEMBL
  A6JZ67_RAT UniProtKB/TrEMBL
  PMGT1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-14 Pomgnt1  protein O-linked mannose N-acetylglucosaminyltransferase 1 (beta 1,2-)  Pomgnt1  protein O-linked mannose beta1,2-N-acetylglucosaminyltransferase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Pomgnt1  protein O-linked mannose beta1,2-N-acetylglucosaminyltransferase  MGC94463  O-linked mannose beta1,2-N-acetylglucosaminyltransferase  Symbol and Name updated 1299863 APPROVED
2005-07-29 MGC94463  O-linked mannose beta1,2-N-acetylglucosaminyltransferase      Symbol and Name status set to provisional 70820 PROVISIONAL