Human Gene GTDC1 (ENST00000409214.5) from GENCODE V44
  Description: Homo sapiens glycosyltransferase like domain containing 1 (GTDC1), transcript variant 1, mRNA. (from RefSeq NM_001006636)
Gencode Transcript: ENST00000409214.5
Gencode Gene: ENSG00000121964.15
Transcript (Including UTRs)
   Position: hg38 chr2:143,945,754-144,294,493 Size: 348,740 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg38 chr2:143,947,052-144,208,781 Size: 261,730 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:143,945,754-144,294,493)mRNA (may differ from genome)Protein (458 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: GTDC1_HUMAN
DESCRIPTION: RecName: Full=Glycosyltransferase-like domain-containing protein 1; AltName: Full=Mat-Xa;
TISSUE SPECIFICITY: Ubiquitous. Expressed at high levels in the lung, spleen, testis and peripheral blood leukocytes.
SIMILARITY: Belongs to the glycosyltransferase group 1 family. Glycosyltransferase 4 subfamily.
SEQUENCE CAUTION: Sequence=AAX93131.1; Type=Erroneous initiation; Sequence=BAB13904.1; Type=Erroneous initiation;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: GTDC1
Diseases sorted by gene-association score: colon adenocarcinoma (5)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 6.92 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 115.54 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -62.90279-0.225 Picture PostScript Text
3' UTR -334.301298-0.258 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001296 - Glyco_trans_1
IPR022701 - GlycosylTrfase_1_N

Pfam Domains:
PF12038 - Domain of unknown function (DUF3524)
PF00534 - Glycosyl transferases group 1

ModBase Predicted Comparative 3D Structure on Q4AE62
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0016740 transferase activity
GO:0016757 transferase activity, transferring glycosyl groups


-  Descriptions from all associated GenBank mRNAs
  AY281366 - Homo sapiens glycosyltransferase-like 1 mRNA, complete cds.
AK130258 - Homo sapiens cDNA FLJ26748 fis, clone PRS01589.
AK091684 - Homo sapiens cDNA FLJ34365 fis, clone FEBRA2016398.
AX747128 - Sequence 653 from Patent EP1308459.
BX647773 - Homo sapiens mRNA; cDNA DKFZp686N0959 (from clone DKFZp686N0959).
AK291357 - Homo sapiens cDNA FLJ76300 complete cds, highly similar to Homo sapiens glycosyltransferase-like domain containing 1 (GTDC1), transcript variant 1, mRNA.
BX647436 - Homo sapiens mRNA; cDNA DKFZp686N20158 (from clone DKFZp686N20158).
AB201269 - Homo sapiens mat-Xa mRNA for mannosyltransferase candidate, complete cds.
AB597184 - Homo sapiens Hmat-Xa mRNA for mannosyltransferase-like protein, partial cds.
BC061699 - Homo sapiens glycosyltransferase-like domain containing 1, mRNA (cDNA clone MGC:62086 IMAGE:4608518), complete cds.
KJ903204 - Synthetic construct Homo sapiens clone ccsbBroadEn_12598 GTDC1 gene, encodes complete protein.
CU687504 - Synthetic construct Homo sapiens gateway clone IMAGE:100022185 5' read GTDC1 mRNA.
BC017741 - Homo sapiens glycosyltransferase-like domain containing 1, mRNA (cDNA clone MGC:21948 IMAGE:4390876), complete cds.
AB112440 - Homo sapiens cDNA, putative mechanical stress-induced gene 26-2, clone: PDL2-26-2.
AK021815 - Homo sapiens cDNA FLJ11753 fis, clone HEMBA1005583.
JD091351 - Sequence 72375 from Patent EP1572962.
JD208175 - Sequence 189199 from Patent EP1572962.
JD283739 - Sequence 264763 from Patent EP1572962.
JD234044 - Sequence 215068 from Patent EP1572962.
JD480364 - Sequence 461388 from Patent EP1572962.
JD156305 - Sequence 137329 from Patent EP1572962.
JD437814 - Sequence 418838 from Patent EP1572962.
JD474623 - Sequence 455647 from Patent EP1572962.
JD193578 - Sequence 174602 from Patent EP1572962.
JD314576 - Sequence 295600 from Patent EP1572962.
JD287729 - Sequence 268753 from Patent EP1572962.
JD462810 - Sequence 443834 from Patent EP1572962.
JD353524 - Sequence 334548 from Patent EP1572962.
JD248842 - Sequence 229866 from Patent EP1572962.
JD419929 - Sequence 400953 from Patent EP1572962.
JD240130 - Sequence 221154 from Patent EP1572962.
JD096747 - Sequence 77771 from Patent EP1572962.
JD443603 - Sequence 424627 from Patent EP1572962.
EF491801 - Homo sapiens clone GTDC1 mRNA, partial sequence; alternatively spliced.
AF090899 - Homo sapiens clone HQ0159 PRO0159 mRNA, complete cds.

-  Other Names for This Gene
  Alternate Gene Symbols: A8K5P2, D3DP81, ENST00000409214.1, ENST00000409214.2, ENST00000409214.3, ENST00000409214.4, GTDC1_HUMAN, NM_001006636, Q4AE62, Q53SM7, Q53TC5, Q6P7E7, Q6PJB6, Q6WKW6, Q9HAE5, uc002tvp.1, uc002tvp.2, uc002tvp.3, uc002tvp.4
UCSC ID: ENST00000409214.5
RefSeq Accession: NM_001006636
Protein: Q4AE62 (aka GTDC1_HUMAN)
CCDS: CCDS33300.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.