St6galnac5 (ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 5) - Rat Genome Database

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Gene: St6galnac5 (ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 5) Rattus norvegicus
Analyze
Symbol: St6galnac5
Name: ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 5
RGD ID: 1564252
Description: Predicted to enable alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity. Predicted to be involved in ganglioside biosynthetic process and oligosaccharide biosynthetic process. Predicted to be located in Golgi apparatus and membrane. Orthologous to human ST6GALNAC5 (ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 5); PARTICIPATES IN ganglioside metabolic pathway; INTERACTS WITH 6-propyl-2-thiouracil; acrylamide; atrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5; alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase V; GalNAc alpha-2,6-sialyltransferase V; GD1 alpha synthase; LOC680513; sialyltransferase 7E; Siat7E; similar to Alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5 (GalNAc alpha-2,6-sialyltransferase V) (ST6GalNAc V) (GD1 alpha synthase) (Sialyltransferase 7E); ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5; ST6 GalNAc alpha-2,6-sialyltransferase 5; ST6GalNAcV
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
NCBI Annotation Information: Note: There is an assembly problem in the Rnor_6.0 reference genome assembly, and therefore, annotation of this gene is split across NW_007905725.1 and NW_007905726.1 in NCBI's Rattus norvegicus Annotation Release 105. [18 Jun 2015]
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82244,398,604 - 244,571,100 (-)NCBIGRCr8
mRatBN7.22241,741,933 - 241,911,214 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2241,742,688 - 241,911,208 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2249,554,339 - 249,722,560 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02247,441,354 - 247,609,586 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02242,354,046 - 242,521,845 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02258,025,177 - 259,150,709 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2258,025,177 - 258,052,835 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02276,689,490 - 276,717,145 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.02277,817,171 - 277,818,389 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2233,679,302 - 233,847,270 (-)NCBICelera
Cytogenetic Map2q45NCBI
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

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
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
Additional References at PubMed
PMID:10521438   PMID:12668675   PMID:15843597  


Genomics

Comparative Map Data
St6galnac5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82244,398,604 - 244,571,100 (-)NCBIGRCr8
mRatBN7.22241,741,933 - 241,911,214 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2241,742,688 - 241,911,208 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2249,554,339 - 249,722,560 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02247,441,354 - 247,609,586 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02242,354,046 - 242,521,845 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02258,025,177 - 259,150,709 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2258,025,177 - 258,052,835 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02276,689,490 - 276,717,145 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.02277,817,171 - 277,818,389 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2233,679,302 - 233,847,270 (-)NCBICelera
Cytogenetic Map2q45NCBI
ST6GALNAC5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38176,867,480 - 77,067,546 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl176,867,480 - 77,067,546 (+)EnsemblGRCh38hg38GRCh38
GRCh37177,333,165 - 77,533,231 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36177,105,774 - 77,302,325 (+)NCBINCBI36Build 36hg18NCBI36
Build 34177,045,206 - 77,241,756NCBI
Celera175,572,629 - 75,769,169 (+)NCBICelera
Cytogenetic Map1p31.1NCBI
HuRef175,463,113 - 75,660,214 (+)NCBIHuRef
CHM1_1177,448,510 - 77,645,048 (+)NCBICHM1_1
T2T-CHM13v2.0176,705,077 - 76,905,729 (+)NCBIT2T-CHM13v2.0
St6galnac5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393152,525,522 - 152,687,847 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl3152,522,718 - 152,687,883 (-)EnsemblGRCm39 Ensembl
GRCm383152,819,885 - 152,982,210 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3152,817,081 - 152,982,246 (-)EnsemblGRCm38mm10GRCm38
MGSCv373152,483,673 - 152,645,171 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv363152,757,272 - 152,919,596 (-)NCBIMGSCv36mm8
Celera3159,273,952 - 159,435,518 (-)NCBICelera
Cytogenetic Map3H3NCBI
cM Map377.16NCBI
ST6GALNAC5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21149,826,258 - 150,027,714 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11148,984,098 - 149,188,156 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0176,080,706 - 76,284,836 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1178,167,466 - 78,370,516 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl178,167,280 - 78,366,180 (+)Ensemblpanpan1.1panPan2
ST6GALNAC5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1669,706,717 - 69,867,760 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl669,709,114 - 69,867,648 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha672,366,015 - 72,525,097 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0670,295,425 - 70,454,897 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl670,296,050 - 70,455,316 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1669,798,107 - 69,957,045 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0669,744,317 - 69,903,731 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0670,230,805 - 70,390,076 (-)NCBIUU_Cfam_GSD_1.0
St6galnac5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505888,305,513 - 88,462,943 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365713,815,823 - 3,973,328 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365713,815,867 - 3,971,219 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ST6GALNAC5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6136,204,374 - 136,390,995 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16136,207,838 - 136,391,083 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26126,450,055 - 126,451,320 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ST6GALNAC5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12056,110,411 - 56,299,639 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2056,113,473 - 56,131,866 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603361,222,546 - 61,409,715 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
St6galnac5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474220,023,494 - 20,188,072 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474220,021,252 - 20,188,542 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in St6galnac5
1427 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:92
Count of miRNA genes:75
Interacting mature miRNAs:77
Transcripts:ENSRNOT00000072899
Prediction methods:Microtar, 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
631563Hcuc3Hepatic copper content QTL 33.87liver copper amount (VT:0003065)liver copper weight to liver dry weight ratio (CMO:0001512)2229059610249053267Rat
1298075Scl17Serum cholesterol level QTL 173.4blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)2211744537249053267Rat
2293833Kiddil8Kidney dilation QTL 82.9kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2219753301247136170Rat
1598835Anxrr18Anxiety related response QTL 182.98body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)2200990457245990457Rat
1300126Bp175Blood pressure QTL 1753.46arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2214226044247136170Rat
7207490Bss111Bone structure and strength QTL 1116.4femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)2211744537249053267Rat
7207484Bss108Bone structure and strength QTL 1085.3femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)2211744537249053267Rat
7411555Bw132Body weight QTL 1320.001body mass (VT:0001259)body weight gain (CMO:0000420)2223389739249053267Rat
9587428Epfw6Epididymal fat weight QTL 67.470.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)2223389739249053267Rat
7207482Bss107Bone structure and strength QTL 1077femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)2211744537249053267Rat
2293844Kiddil7Kidney dilation QTL 73.5kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2219753301247136170Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
2317752Glom23Glomerulus QTL 233.6urine protein amount (VT:0005160)urine protein level (CMO:0000591)2193452645245889826Rat
1549836Bss2Bone structure and strength QTL 27.5femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)2211744537249053267Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
2317885Alcrsp28Alcohol response QTL 282.10.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2212828222249053267Rat

Markers in Region
D2Got177  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22241,791,857 - 241,792,133 (+)MAPPERmRatBN7.2
Rnor_6.02259,031,675 - 259,031,950NCBIRnor6.0
Rnor_5.02277,701,132 - 277,701,407UniSTSRnor5.0
Celera2233,728,384 - 233,728,659UniSTS
RH 3.4 Map21654.8RGD
RH 3.4 Map21654.8UniSTS
RH 2.0 Map21228.0RGD
D2Got409  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22241,791,874 - 241,792,155 (+)MAPPERmRatBN7.2
Rnor_6.02259,031,692 - 259,031,972NCBIRnor6.0
Rnor_5.02277,701,149 - 277,701,429UniSTSRnor5.0
Celera2233,728,401 - 233,728,681UniSTS
RH143111  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22241,910,370 - 241,910,524 (+)MAPPERmRatBN7.2
Rnor_6.02259,149,873 - 259,150,026NCBIRnor6.0
Rnor_5.02277,817,553 - 277,817,706UniSTSRnor5.0
Celera2233,846,433 - 233,846,587UniSTS
RH 3.4 Map21649.01UniSTS
BF409913  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22241,742,940 - 241,743,109 (+)MAPPERmRatBN7.2
Rnor_6.02258,025,430 - 258,025,598NCBIRnor6.0
Rnor_5.02276,689,743 - 276,689,911UniSTSRnor5.0
Celera2233,679,555 - 233,679,723UniSTS
RH 3.4 Map21651.02UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 8 31 113 77 76 47 25 47 6 178 73 93 41 58 29

Sequence


Ensembl Acc Id: ENSRNOT00000072899   ⟹   ENSRNOP00000066049
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2241,742,688 - 241,911,208 (-)Ensembl
Rnor_6.0 Ensembl2258,025,177 - 258,052,835 (-)Ensembl
RefSeq Acc Id: NM_001271361   ⟹   NP_001258290
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82244,402,589 - 244,571,097 (-)NCBI
mRatBN7.22241,742,688 - 241,911,208 (-)NCBI
Rnor_6.02258,025,177 - 259,150,709 (-)NCBI
Rnor_5.02276,689,490 - 276,717,145 (-)NCBI
Rnor_5.02277,817,171 - 277,818,389 (-)NCBI
Celera2233,679,302 - 233,847,270 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039102815   ⟹   XP_038958743
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82244,398,604 - 244,571,100 (-)NCBI
mRatBN7.22241,741,933 - 241,911,214 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001258290 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958743 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAG26701 (Get FASTA)   NCBI Sequence Viewer  
  EDL82513 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000066049.2
RefSeq Acc Id: NP_001258290   ⟸   NM_001271361
- UniProtKB: Q6ZXY9 (UniProtKB/TrEMBL),   M0R986 (UniProtKB/TrEMBL),   A0A9K3Y7N2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000066049   ⟸   ENSRNOT00000072899
RefSeq Acc Id: XP_038958743   ⟸   XM_039102815
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R986-F1-model_v2 AlphaFold M0R986 1-250 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:1564252 AgrOrtholog
BioCyc Gene G2FUF-50786 BioCyc
Ensembl Genes ENSRNOG00000049676 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000072899.3 UniProtKB/TrEMBL
Gene3D-CATH 3.90.1480.20 UniProtKB/TrEMBL
InterPro Glyco_trans_29 UniProtKB/TrEMBL
  GT29-like_sf UniProtKB/TrEMBL
  Sialyl_trans UniProtKB/TrEMBL
KEGG Report rno:365984 UniProtKB/TrEMBL
NCBI Gene 365984 ENTREZGENE
PANTHER ALPHA-N-ACETYLGALACTOSAMINIDE ALPHA-2,6-SIALYLTRANSFERASE 5 UniProtKB/TrEMBL
  PTHR45906 UniProtKB/TrEMBL
Pfam Glyco_transf_29 UniProtKB/TrEMBL
PhenoGen St6galnac5 PhenoGen
PIRSF Sialyl_trans UniProtKB/TrEMBL
RatGTEx ENSRNOG00000049676 RatGTEx
UniProt A0A9K3Y7N2 ENTREZGENE, UniProtKB/TrEMBL
  M0R986 ENTREZGENE
  Q6ZXY9 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary M0R986 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-05-05 St6galnac5  ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 5  St6galnac5  ST6 GalNAc alpha-2,6-sialyltransferase 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-04-27 St6galnac5  ST6 GalNAc alpha-2,6-sialyltransferase 5  St6galnac5  ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-29 St6galnac5  ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5  LOC680513  similar to Alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5 (GalNAc alpha-2,6-sialyltransferase V) (ST6GalNAc V) (GD1 alpha synthase) (Sialyltransferase 7E)  Data merged from RGD:1590647 737654 PROVISIONAL
2013-08-07 St6galnac5  ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5  Siat7E  sialyltransferase 7E  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC680513  similar to Alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5 (GalNAc alpha-2,6-sialyltransferase V) (ST6GalNAc V) (GD1 alpha synthase) (Sialyltransferase 7E)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-02-09 Siat7E  sialyltransferase 7E      Symbol and Name status set to provisional 70820 PROVISIONAL