B3gnt2 (UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2) - Rat Genome Database

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Gene: B3gnt2 (UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2) Rattus norvegicus
Analyze
Symbol: B3gnt2
Name: UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2
RGD ID: 1310077
Description: Predicted to have N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase activity and acetylgalactosaminyltransferase activity. Predicted to be involved in several processes, including cellular macromolecule biosynthetic process; cellular response to leukemia inhibitory factor; and sensory perception of smell. Predicted to localize to Golgi apparatus. Orthologous to human B3GNT2 (UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2); PARTICIPATES IN keratan sulfate biosynthetic pathway; lacto-series glycosphingolipid metabolic pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: B3gnt1; LOC305571; N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase 2; UDP-GlcNAc:betaGal beta-1,3-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: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21496,808,473 - 96,833,674 (-)NCBI
Rnor_6.0 Ensembl14107,592,336 - 107,617,161 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.014107,592,336 - 107,617,189 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.014107,652,782 - 107,677,930 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414103,499,471 - 103,524,296 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.114103,519,717 - 103,542,783 (-)NCBI
Celera1495,796,439 - 95,821,264 (-)NCBICelera
Cytogenetic Map14q22NCBI
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

Biological Process

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:9892646   PMID:11042166   PMID:15728829   PMID:20439489   PMID:23006775   PMID:23376485   PMID:25279697  


Genomics

Comparative Map Data
B3gnt2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21496,808,473 - 96,833,674 (-)NCBI
Rnor_6.0 Ensembl14107,592,336 - 107,617,161 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.014107,592,336 - 107,617,189 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.014107,652,782 - 107,677,930 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414103,499,471 - 103,524,296 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.114103,519,717 - 103,542,783 (-)NCBI
Celera1495,796,439 - 95,821,264 (-)NCBICelera
Cytogenetic Map14q22NCBI
B3GNT2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl262,196,115 - 62,224,731 (+)EnsemblGRCh38hg38GRCh38
GRCh38262,196,115 - 62,224,731 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37262,423,250 - 62,451,866 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36262,276,766 - 62,305,370 (+)NCBINCBI36hg18NCBI36
Build 34262,334,924 - 62,363,515NCBI
Celera262,267,974 - 62,296,577 (+)NCBI
Cytogenetic Map2p15NCBI
HuRef262,161,876 - 62,190,478 (+)NCBIHuRef
CHM1_1262,353,514 - 62,382,109 (+)NCBICHM1_1
B3gnt2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391122,784,739 - 22,810,336 (-)NCBIGRCm39mm39
GRCm39 Ensembl1122,709,738 - 22,810,961 (-)Ensembl
GRCm381122,834,739 - 22,860,336 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1122,759,738 - 22,860,961 (-)EnsemblGRCm38mm10GRCm38
MGSCv371122,734,739 - 22,760,336 (-)NCBIGRCm37mm9NCBIm37
MGSCv361122,734,747 - 22,765,435 (-)NCBImm8
Celera1124,970,900 - 24,996,043 (-)NCBICelera
Cytogenetic Map11A3.2NCBI
cM Map1114.22NCBI
B3gnt2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542421,859,901 - 21,888,722 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542421,859,901 - 21,888,722 (-)NCBIChiLan1.0ChiLan1.0
B3GNT2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A63,409,166 - 63,437,801 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A63,435,289 - 63,436,482 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A62,276,662 - 62,305,286 (+)NCBIMhudiblu_PPA_v0panPan3
B3GNT2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11062,170,262 - 62,239,010 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1062,145,117 - 62,146,310 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1062,145,117 - 62,146,310 (+)NCBICanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1062,006,771 - 62,127,039 (+)NCBI
ROS_Cfam_1.01063,126,016 - 63,246,466 (+)NCBI
UMICH_Zoey_3.11062,809,530 - 62,929,648 (+)NCBI
UNSW_CanFamBas_1.01063,112,620 - 63,232,848 (+)NCBI
UU_Cfam_GSD_1.01063,409,638 - 63,529,912 (+)NCBI
B3gnt2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629221,059,873 - 21,089,048 (-)NCBI
SpeTri2.0NW_0049364917,482,226 - 7,511,419 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
B3GNT2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl379,667,454 - 79,857,384 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1379,671,393 - 79,704,049 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2383,442,753 - 83,475,397 (-)NCBISscrofa10.2Sscrofa10.2susScr3
B3GNT2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11444,748,997 - 44,776,815 (-)NCBI
ChlSab1.1 Ensembl1444,750,308 - 44,751,501 (-)Ensembl
Vero_WHO_p1.0NW_02366604567,060,099 - 67,087,631 (+)NCBI
B3gnt2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476211,202,143 - 11,403,617 (-)NCBI

Position Markers
RH130434  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21496,808,570 - 96,808,762 (+)MAPPER
Rnor_6.014107,592,434 - 107,592,625NCBIRnor6.0
Rnor_5.014107,652,880 - 107,653,071UniSTSRnor5.0
RGSC_v3.414103,499,569 - 103,499,760UniSTSRGSC3.4
Celera1495,796,537 - 95,796,728UniSTS
RH 3.4 Map14765.1UniSTS
Cytogenetic Map14q22UniSTS
RH143416  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21496,810,689 - 96,810,986 (+)MAPPER
Rnor_6.014107,594,553 - 107,594,849NCBIRnor6.0
Rnor_5.014107,654,999 - 107,655,295UniSTSRnor5.0
RGSC_v3.414103,501,688 - 103,501,984UniSTSRGSC3.4
Celera1495,798,656 - 95,798,952UniSTS
RH 3.4 Map14764.3UniSTS
Cytogenetic Map14q22UniSTS
BE105706  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21496,834,854 - 96,835,048 (+)MAPPER
Rnor_6.014107,618,718 - 107,618,911NCBIRnor6.0
Rnor_5.014107,679,366 - 107,679,559UniSTSRnor5.0
RGSC_v3.414103,525,853 - 103,526,046UniSTSRGSC3.4
Celera1495,822,821 - 95,823,014UniSTS
RH 3.4 Map14772.5UniSTS
Cytogenetic Map14q22UniSTS
AU049826  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21496,823,084 - 96,823,230 (+)MAPPER
Rnor_6.014107,606,948 - 107,607,093NCBIRnor6.0
Rnor_5.014107,667,394 - 107,667,539UniSTSRnor5.0
RGSC_v3.414103,514,083 - 103,514,228UniSTSRGSC3.4
Celera1495,811,051 - 95,811,196UniSTS
Cytogenetic Map14q22UniSTS
UniSTS:495936  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21496,810,473 - 96,810,627 (+)MAPPER
Rnor_6.014107,594,337 - 107,594,490NCBIRnor6.0
Rnor_5.014107,654,783 - 107,654,936UniSTSRnor5.0
RGSC_v3.414103,501,472 - 103,501,625UniSTSRGSC3.4
Celera1495,798,440 - 95,798,593UniSTS
Cytogenetic Map14q22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1442442731108833671Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1463548095108548095Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1478446303110402569Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1480049285115493446Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1480049285115493446Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:374
Count of miRNA genes:215
Interacting mature miRNAs:264
Transcripts:ENSRNOT00000012286
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.


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 6 37 21 19 21 17 29 33 11
Low 37 20 20 20 8 11 57 6 8 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000012286   ⟹   ENSRNOP00000012286
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl14107,592,336 - 107,617,161 (-)Ensembl
RefSeq Acc Id: NM_001107240   ⟹   NP_001100710
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21496,808,473 - 96,833,298 (-)NCBI
Rnor_6.014107,592,336 - 107,617,161 (-)NCBI
Rnor_5.014107,652,782 - 107,677,930 (-)NCBI
RGSC_v3.414103,499,471 - 103,524,296 (-)RGD
Celera1495,796,439 - 95,821,264 (-)RGD
Sequence:
RefSeq Acc Id: XM_006251554   ⟹   XP_006251616
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21496,808,475 - 96,832,574 (-)NCBI
Rnor_6.014107,592,338 - 107,616,438 (-)NCBI
Rnor_5.014107,652,782 - 107,677,930 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006251555   ⟹   XP_006251617
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21496,808,475 - 96,833,055 (-)NCBI
Rnor_6.014107,592,338 - 107,616,870 (-)NCBI
Rnor_5.014107,652,782 - 107,677,930 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006251556   ⟹   XP_006251618
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21496,808,475 - 96,833,266 (-)NCBI
Rnor_6.014107,592,338 - 107,617,189 (-)NCBI
Rnor_5.014107,652,782 - 107,677,930 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008770427   ⟹   XP_008768649
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21496,808,475 - 96,827,664 (-)NCBI
Rnor_6.014107,592,338 - 107,612,894 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039092089   ⟹   XP_038948017
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21496,808,475 - 96,833,674 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001100710   ⟸   NM_001107240
- UniProtKB: D3ZEF9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251618   ⟸   XM_006251556
- Peptide Label: isoform X1
- UniProtKB: D3ZEF9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251617   ⟸   XM_006251555
- Peptide Label: isoform X1
- UniProtKB: D3ZEF9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251616   ⟸   XM_006251554
- Peptide Label: isoform X1
- UniProtKB: D3ZEF9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008768649   ⟸   XM_008770427
- Peptide Label: isoform X1
- UniProtKB: D3ZEF9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000012286   ⟸   ENSRNOT00000012286
RefSeq Acc Id: XP_038948017   ⟸   XM_039092089
- Peptide Label: isoform X1

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310077 AgrOrtholog
Ensembl Genes ENSRNOG00000009267 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000012286 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000012286 ENTREZGENE, UniProtKB/TrEMBL
InterPro Glyco_trans_31 UniProtKB/TrEMBL
KEGG Report rno:305571 UniProtKB/TrEMBL
NCBI Gene 305571 ENTREZGENE
PANTHER Glyco_trans_31 UniProtKB/TrEMBL
Pfam Galactosyl_T UniProtKB/TrEMBL
PhenoGen B3gnt2 PhenoGen
UniProt D3ZEF9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-03 B3gnt2  UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2  B3gnt1_predicted  UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 1 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 B3gnt1_predicted  UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED