General information for g14464.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase 1.
Parent gene
- The parent gene g14464 is located on chr_4: 706423..707727 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_4 | g14464 | g14464.t1 | isoform | g14464.t1 | 706423 | 707727 |
| chr_4 | g14464 | g14464.t1 | exon | g14464.t1.exon1 | 706423 | 706468 |
| chr_4 | g14464 | g14464.t1 | cds | g14464.t1.CDS1 | 706423 | 706468 |
| chr_4 | g14464 | g14464.t1 | exon | g14464.t1.exon2 | 706694 | 706956 |
| chr_4 | g14464 | g14464.t1 | cds | g14464.t1.CDS2 | 706694 | 706956 |
| chr_4 | g14464 | g14464.t1 | exon | g14464.t1.exon3 | 707017 | 707727 |
| chr_4 | g14464 | g14464.t1 | cds | g14464.t1.CDS3 | 707017 | 707727 |
| chr_4 | g14464 | g14464.t1 | TSS | g14464.t1 | NA | NA |
| chr_4 | g14464 | g14464.t1 | TTS | g14464.t1 | NA | NA |
Sequences
>g14464.t1 Gene=g14464 Length=1020
ATGAAGGAAATTAAAAACTCTGAACATGAAATTCTAAATGAAAAAGATCAACTGCCAATT
AAATTTCATCAGAAACATACACGATTTTCAATCATAATTTCTTTATTCTTTGGATTGATT
TTTGGATATCTATTTGCTTATTTATTACAAATTTCACCAGATGTTTTTGAACATATTTTT
TCATATGAGCTCAAACATTTAGAAAATCCAAGCAATGCAAATTTCAAAAATTTCAACAAT
TTACTCAAATTTAATGAAACTTTAAAAAATTATGGAAATGACACCATCGTAAAGAACTCT
AAAAAAGAAGTAAAAATTCTATGCTGGATAATGACAAATCCAAGCAATCACAAATTAAAA
GCAATTCATGTAAAAAGTACTTGGGGTCCACACTGTGATAAACTTCTCTTCATGAGTTCA
AATTATGATCCAGAATTAAATTCAATTGCACTTCCTGTTAGAGAAGGTCGTAACAATCTT
TGGGCGAAAACAAAAGAAGCTTTTAAGTATGTCTACAAAAATCATTTAAATGATTATGAC
TGGTTTATGAAAGCTGATGATGACACTTATATGATTGTTGAAAATTTAAGACATTTTTTA
TTTTCTTATTCATCTAATCAGCCAATTTATTTTGGTTATCATTTTGATCGATTTACAAAG
CAAGGATTTATGAGTGGAGGTGCTGGATATGTACTAAGTAAAGAAGCAGTCAAAAGATTT
GTTGAAAGAGGTCTTCCCGATAAGACGAAATGTCGACAAGAATCAGATGGTCCTGAAGAC
GTTGAAATAGGAAAATGTCTTGAACATGTTCAAGTTATAGTTGGAAATTCTACTGATATG
AAAGGTCGAGAAAGATTTTTTCCAATGAATCCATTAAGCTATTATAAATATGCTGCTCTA
AATGTAAAAATGGATTTGGAATGTTTTTCTGAAAGTGCAATTTCATTTCATTATATAAAA
CCCATACAAATGTATCTTCTTGAATATTTTATTTATAATCTTAAAATATTTGGAAGTTAA
>g14464.t1 Gene=g14464 Length=339
MKEIKNSEHEILNEKDQLPIKFHQKHTRFSIIISLFFGLIFGYLFAYLLQISPDVFEHIF
SYELKHLENPSNANFKNFNNLLKFNETLKNYGNDTIVKNSKKEVKILCWIMTNPSNHKLK
AIHVKSTWGPHCDKLLFMSSNYDPELNSIALPVREGRNNLWAKTKEAFKYVYKNHLNDYD
WFMKADDDTYMIVENLRHFLFSYSSNQPIYFGYHFDRFTKQGFMSGGAGYVLSKEAVKRF
VERGLPDKTKCRQESDGPEDVEIGKCLEHVQVIVGNSTDMKGRERFFPMNPLSYYKYAAL
NVKMDLECFSESAISFHYIKPIQMYLLEYFIYNLKIFGS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g14464.t1 | Gene3D | G3DSA:3.90.550.50 | - | 95 | 280 | 2.4E-16 |
| 2 | g14464.t1 | PANTHER | PTHR23033:SF13 | GLYCOPROTEIN-N-ACETYLGALACTOSAMINE 3-BETA-GALACTOSYLTRANSFERASE 1 | 32 | 338 | 4.2E-83 |
| 3 | g14464.t1 | PANTHER | PTHR23033 | BETA1,3-GALACTOSYLTRANSFERASE | 32 | 338 | 4.2E-83 |
| 1 | g14464.t1 | Pfam | PF02434 | Fringe-like | 110 | 272 | 1.8E-12 |
| 6 | g14464.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 28 | - |
| 8 | g14464.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 29 | 49 | - |
| 7 | g14464.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 50 | 339 | - |
| 4 | g14464.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 29 | 51 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0016020 | membrane | CC |
| GO:0016757 | glycosyltransferase activity | MF |
| GO:0016266 | O-glycan processing | BP |
| GO:0016263 | glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase activity | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
