Csgalnact1 (chondroitin sulfate N-acetylgalactosaminyltransferase 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Csgalnact1 (chondroitin sulfate N-acetylgalactosaminyltransferase 1) Ictidomys tridecemlineatus
Analyze
Symbol: Csgalnact1
Name: chondroitin sulfate N-acetylgalactosaminyltransferase 1
RGD ID: 12514989
Description: ENCODES a protein that exhibits acetylgalactosaminyltransferase activity (inferred); glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity (inferred); glucuronosyltransferase activity (inferred); INVOLVED IN cartilage development (ortholog); chondroitin sulfate metabolic process (ortholog); endochondral ossification (ortholog); ASSOCIATED WITH Experimental Liver Cirrhosis (ortholog); genetic disease (ortholog); hereditary spastic paraplegia 53 (ortholog); FOUND IN Golgi apparatus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494314,762,965 - 14,931,054 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365553,637,630 - 3,807,488 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365553,639,459 - 3,807,483 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Csgalnact1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494314,762,965 - 14,931,054 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365553,637,630 - 3,807,488 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365553,639,459 - 3,807,483 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CSGALNACT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38819,404,161 - 19,757,908 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl819,404,161 - 19,758,029 (-)EnsemblGRCh38hg38GRCh38
GRCh37819,261,672 - 19,615,419 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36819,305,952 - 19,584,374 (-)NCBINCBI36Build 36hg18NCBI36
Celera818,225,010 - 18,503,692 (-)NCBICelera
Cytogenetic Map8p21.3NCBI
HuRef817,801,989 - 18,080,455 (-)NCBIHuRef
CHM1_1819,463,117 - 19,741,804 (-)NCBICHM1_1
T2T-CHM13v2.0819,669,045 - 20,022,919 (-)NCBIT2T-CHM13v2.0
Csgalnact1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39868,809,433 - 69,188,270 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl868,809,433 - 69,187,798 (-)EnsemblGRCm39 Ensembl
GRCm38868,356,781 - 68,735,621 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl868,356,781 - 68,735,146 (-)EnsemblGRCm38mm10GRCm38
MGSCv37870,880,682 - 71,259,041 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36871,285,783 - 71,664,123 (-)NCBIMGSCv36mm8
Celera870,901,764 - 71,270,170 (-)NCBICelera
Cytogenetic Map8B3.3NCBI
cM Map833.88NCBI
Csgalnact1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81625,761,946 - 26,097,306 (+)NCBIGRCr8
mRatBN7.21620,995,210 - 21,330,586 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1621,235,784 - 21,330,319 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1624,611,968 - 24,709,528 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01628,042,972 - 28,141,568 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01623,977,291 - 24,074,861 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01622,704,318 - 23,075,071 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1622,979,444 - 23,074,798 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01622,733,680 - 22,963,531 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41622,852,516 - 22,947,139 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11622,852,484 - 22,946,543 (+)NCBI
Celera1621,395,359 - 21,488,688 (+)NCBICelera
Cytogenetic Map16p14NCBI
Csgalnact1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540343,178,520 - 43,478,885 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540343,178,520 - 43,347,121 (-)NCBIChiLan1.0ChiLan1.0
CSGALNACT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2737,883,225 - 38,236,716 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1813,608,924 - 13,962,206 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0818,626,998 - 18,980,416 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1815,576,416 - 15,929,342 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl815,576,416 - 15,904,123 (-)Ensemblpanpan1.1panPan2
CSGALNACT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11622,219,324 - 22,546,501 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1622,219,861 - 22,392,937 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1622,724,714 - 23,051,863 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01623,960,246 - 24,287,450 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1623,961,632 - 24,286,927 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11622,317,927 - 22,427,544 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01622,903,836 - 23,231,159 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01622,955,384 - 23,282,687 (-)NCBIUU_Cfam_GSD_1.0
CSGALNACT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1712,428,893 - 12,498,585 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11712,145,141 - 12,498,777 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21710,059,885 - 10,154,331 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CSGALNACT1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1817,494,312 - 17,851,497 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl817,494,187 - 17,695,037 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605224,650,059 - 24,756,656 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Csgalnact1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475815,200,713 - 15,367,236 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475815,200,726 - 15,517,146 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_013360341 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010000002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSSTOT00000024189   ⟹   ENSSTOP00000017040
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365553,637,630 - 3,807,488 (-)Ensembl
RefSeq Acc Id: XM_013360341   ⟹   XP_013215795
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494314,762,965 - 14,931,054 (+)NCBI
SpeTri2.0NW_0049365553,639,459 - 3,807,483 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_013215795 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000017040.2
GenBank Protein KAG3294448 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_013215795   ⟸   XM_013360341
- UniProtKB: I3MY44 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSTOP00000017040   ⟸   ENSSTOT00000024189


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000025203 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000024189.2 UniProtKB/TrEMBL
InterPro Chond_GalNAc UniProtKB/TrEMBL
  Nucleotide-diphossugar_trans UniProtKB/TrEMBL
NCBI Gene Csgalnact1 ENTREZGENE
PANTHER CHONDROITIN SULFATE N-ACETYLGALACTOSAMINYLTRANSFERASE 1 UniProtKB/TrEMBL
  CHONDROITIN SYNTHASE UniProtKB/TrEMBL
Pfam CHGN UniProtKB/TrEMBL
Superfamily-SCOP SSF53448 UniProtKB/TrEMBL
UniProt I3MY44 ENTREZGENE, UniProtKB/TrEMBL