Galntl6 (polypeptide N-acetylgalactosaminyltransferase-like 6) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Galntl6 (polypeptide N-acetylgalactosaminyltransferase-like 6) Rattus norvegicus
Analyze
Symbol: Galntl6
Name: polypeptide N-acetylgalactosaminyltransferase-like 6
RGD ID: 1564773
Description: Predicted to have polypeptide N-acetylgalactosaminyltransferase activity. Predicted to be involved in protein O-linked glycosylation via threonine. Predicted to localize to Golgi membrane and integral component of membrane. Orthologous to human GALNTL6 (polypeptide N-acetylgalactosaminyltransferase like 6); PARTICIPATES IN O-linked glycan biosynthetic pathway; INTERACTS WITH bisphenol A; copper atom; copper(0).
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Galnt17; LOC361142; polypeptide N-acetylgalactosaminyltransferase 17; RGD1564773; similar to GalNAc transferase 10 isoform a; UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase-like 6
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Galntl6Tn(sb-T2/Bart3)2.311Mcwi  
Genetic Models: F344-Galntl6Tn(sb-T2/Bart3)2.311McwiRrrc
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21631,192,880 - 32,443,979 (+)NCBI
Rnor_6.0 Ensembl1635,573,058 - 35,802,979 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01634,551,052 - 35,803,840 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01634,380,195 - 35,619,972 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41634,557,663 - 35,853,849 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1631,164,115 - 32,391,302 (+)NCBICelera
Cytogenetic Map16p12-p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:22186971  


Genomics

Comparative Map Data
Galntl6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21631,192,880 - 32,443,979 (+)NCBI
Rnor_6.0 Ensembl1635,573,058 - 35,802,979 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01634,551,052 - 35,803,840 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01634,380,195 - 35,619,972 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41634,557,663 - 35,853,849 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1631,164,115 - 32,391,302 (+)NCBICelera
Cytogenetic Map16p12-p11NCBI
GALNTL6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl4171,812,254 - 173,041,559 (+)EnsemblGRCh38hg38GRCh38
GRCh384171,812,656 - 173,041,559 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh374172,734,555 - 173,962,710 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 364172,971,229 - 174,199,285 (+)NCBINCBI36hg18NCBI36
Celera4170,062,968 - 171,286,585 (+)NCBI
Cytogenetic Map4q34.1NCBI
HuRef4168,485,006 - 169,708,955 (+)NCBIHuRef
CHM1_14172,710,999 - 173,938,017 (+)NCBICHM1_1
Galntl6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39858,225,523 - 59,366,213 (-)NCBIGRCm39mm39
GRCm39 Ensembl858,227,086 - 59,365,674 (-)Ensembl
GRCm38857,772,489 - 58,912,531 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl857,774,052 - 58,912,640 (-)EnsemblGRCm38mm10GRCm38
MGSCv37860,255,020 - 61,390,424 (-)NCBIGRCm37mm9NCBIm37
MGSCv36861,319,636 - 61,803,769 (-)NCBImm8
Celera860,409,916 - 61,526,480 (-)NCBICelera
Cytogenetic Map8B2NCBI
Galntl6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540333,920,869 - 34,940,513 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540333,920,850 - 34,941,539 (-)NCBIChiLan1.0ChiLan1.0
GALNTL6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.14176,315,593 - 177,506,548 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4176,492,344 - 177,507,694 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v04164,033,081 - 165,270,337 (+)NCBIMhudiblu_PPA_v0panPan3
GALNTL6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12522,540,129 - 23,698,714 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2522,541,138 - 23,697,860 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2523,181,504 - 24,346,149 (+)NCBI
ROS_Cfam_1.02522,697,788 - 23,856,830 (+)NCBI
UMICH_Zoey_3.12522,621,466 - 23,805,080 (+)NCBI
UNSW_CanFamBas_1.02522,531,447 - 23,692,294 (+)NCBI
UU_Cfam_GSD_1.02522,687,620 - 23,845,411 (+)NCBI
Galntl6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494322,836,685 - 23,884,563 (+)NCBI
SpeTri2.0NW_0049365163,251,015 - 4,297,162 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GALNTL6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1416,933,273 - 18,143,473 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11416,932,854 - 18,147,724 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21418,851,657 - 19,437,202 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GALNTL6
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.17117,959,017 - 119,158,744 (+)NCBI
Galntl6
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247693,382,769 - 4,539,805 (+)NCBI

Position Markers
D16Rat102  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21631,250,969 - 31,251,104 (+)MAPPER
Rnor_6.01634,610,131 - 34,610,265NCBIRnor6.0
Rnor_5.01634,437,827 - 34,437,961UniSTSRnor5.0
RGSC_v3.41634,614,771 - 34,614,907RGDRGSC3.4
RGSC_v3.41634,614,773 - 34,614,907UniSTSRGSC3.4
RGSC_v3.11634,614,846 - 34,614,982RGD
Celera1631,220,763 - 31,220,897UniSTS
SHRSP x BN Map1612.35UniSTS
SHRSP x BN Map1612.35RGD
FHH x ACI Map1620.0199RGD
Cytogenetic Map16p12-p11UniSTS
D16Rat19  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21631,951,520 - 31,951,755 (+)MAPPER
Rnor_6.01635,307,110 - 35,307,342NCBIRnor6.0
Rnor_5.01635,126,908 - 35,127,140UniSTSRnor5.0
RGSC_v3.41635,339,929 - 35,340,162RGDRGSC3.4
RGSC_v3.41635,339,930 - 35,340,162UniSTSRGSC3.4
RGSC_v3.11635,340,004 - 35,340,237RGD
Celera1631,918,000 - 31,918,232UniSTS
FHH x ACI Map1621.0698RGD
FHH x ACI Map1621.0698UniSTS
Cytogenetic Map16p12-p11UniSTS
BE102110  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21631,193,068 - 31,193,274 (+)MAPPER
Rnor_6.01634,552,757 - 34,552,962NCBIRnor6.0
Rnor_5.01634,380,453 - 34,380,658UniSTSRnor5.0
RGSC_v3.41634,556,454 - 34,556,659UniSTSRGSC3.4
Celera1631,162,906 - 31,163,111UniSTS
Cytogenetic Map16p12-p11UniSTS
AU048100  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21631,951,292 - 31,951,482 (+)MAPPER
Rnor_6.01635,306,882 - 35,307,071NCBIRnor6.0
Rnor_5.01635,126,680 - 35,126,869UniSTSRnor5.0
RGSC_v3.41635,339,702 - 35,339,891UniSTSRGSC3.4
Celera1631,917,772 - 31,917,961UniSTS
Cytogenetic Map16p12-p11UniSTS
RH134742  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22048,520,675 - 48,520,874 (+)MAPPER
Rnor_6.02050,137,123 - 50,137,321NCBIRnor6.0
Rnor_5.02051,753,705 - 51,753,903UniSTSRnor5.0
RGSC_v3.42048,989,382 - 48,989,580UniSTSRGSC3.4
Celera1631,493,101 - 31,493,299UniSTS
RH 3.4 Map20512.8UniSTS
Cytogenetic Map16p12-p11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16141240937Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16141240937Rat
631561Hcuc2Hepatic copper content QTL 22.8hepatic copper amount (VT:0003065)liver total copper weight (CMO:0001507)16141240957Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)1624459345244593Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)16109005486162972Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16134074146340741Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)16155018749247447Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)16155018763210301Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16155018763210301Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)16155018763210301Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)16155018763210301Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16172829746728297Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16413635545905331Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16501380245905331Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16501380245905331Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)16501380245905331Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16501380250013802Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16501380250169318Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16501380252144919Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16501380264012784Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161939818770590230Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161939818770590230Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161939818770590230Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161939818770590230Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)162075555680316424Rat
2302057Pia29Pristane induced arthritis QTL 293.60.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)162484654169846541Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)162751998072519980Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)162834031573340315Rat
1298529Arunc1Aerobic running capacity QTL 14exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)163530711063909364Rat


Genetic Models
This gene Galntl6 is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:290
Count of miRNA genes:202
Interacting mature miRNAs:238
Transcripts:ENSRNOT00000059580, ENSRNOT00000074353
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 hemolymphoid system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 16
Low 1 48 4 8 8
Below cutoff 2 4 7 6 2 2 4 15 17 3 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000059580   ⟹   ENSRNOP00000056338
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1635,573,058 - 35,802,979 (+)Ensembl
RefSeq Acc Id: NM_001135756   ⟹   NP_001129228
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21631,194,278 - 32,440,940 (+)NCBI
Rnor_6.01634,553,966 - 35,802,982 (+)NCBI
Rnor_5.01634,380,195 - 35,619,972 (+)NCBI
RGSC_v3.41634,557,663 - 35,853,849 (+)RGD
Celera1631,164,115 - 32,391,302 (+)RGD
Sequence:
RefSeq Acc Id: XM_017600182   ⟹   XP_017455671
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21631,192,880 - 32,443,979 (+)NCBI
Rnor_6.01634,551,052 - 35,803,840 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039094637   ⟹   XP_038950565
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21631,740,983 - 32,443,979 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001129228 (Get FASTA)   NCBI Sequence Viewer  
  XP_017455671 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950565 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL87175 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001129228   ⟸   NM_001135756
- Sequence:
RefSeq Acc Id: XP_017455671   ⟸   XM_017600182
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000056338   ⟸   ENSRNOT00000059580
RefSeq Acc Id: XP_038950565   ⟸   XM_039094637
- Peptide Label: isoform X2
Protein Domains
Ricin B-type lectin

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)
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
MR/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
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/Ygl (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
SBN/Ygl (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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/NHsd (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
SHRSP/Gcrc (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
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (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
WAG/Rij (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
WKY/Gcrc (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
WKY/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
WKY/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
WKY/NHsd (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
WN/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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564773 AgrOrtholog
Ensembl Genes ENSRNOG00000038976 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000056338 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000059580 UniProtKB/TrEMBL
Gene3D-CATH 3.90.550.10 UniProtKB/TrEMBL
InterPro Glyco_trans_2-like UniProtKB/TrEMBL
  Nucleotide-diphossugar_trans UniProtKB/TrEMBL
  Ricin_B-like_lectins UniProtKB/TrEMBL
  Ricin_B_lectin UniProtKB/TrEMBL
NCBI Gene 361142 ENTREZGENE
Pfam Glycos_transf_2 UniProtKB/TrEMBL
  Ricin_B_lectin UniProtKB/TrEMBL
PhenoGen Galntl6 PhenoGen
PROSITE RICIN_B_LECTIN UniProtKB/TrEMBL
SMART RICIN UniProtKB/TrEMBL
Superfamily-SCOP SSF50370 UniProtKB/TrEMBL
  SSF53448 UniProtKB/TrEMBL
Transposagen Galntl6 Transposagen
UniProt D3ZTT8_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-12-01 Galntl6  UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase-like 6  RGD1564773  similar to GalNAc transferase 10 isoform a   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1564773  similar to GalNAc transferase 10 isoform a   RGD1564773_predicted  similar to GalNAc transferase 10 isoform a (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1564773_predicted  similar to GalNAc transferase 10 isoform a (predicted)  LOC361142  similar to GalNAc transferase 10 isoform a  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC361142  similar to GalNAc transferase 10 isoform a      Symbol and Name status set to provisional 70820 PROVISIONAL