General information for g17827.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative polypeptide N-acetylgalactosaminyltransferase 9.
Parent gene
- The parent gene g17827 is located on HiC_scaffold_385: 11168..12119 (+ 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 |
|---|---|---|---|---|---|---|
| HiC_scaffold_385 | g17827 | g17827.t1 | isoform | g17827.t1 | 11168 | 12119 |
| HiC_scaffold_385 | g17827 | g17827.t1 | exon | g17827.t1.exon1 | 11168 | 11237 |
| HiC_scaffold_385 | g17827 | g17827.t1 | cds | g17827.t1.CDS1 | 11168 | 11237 |
| HiC_scaffold_385 | g17827 | g17827.t1 | exon | g17827.t1.exon2 | 11298 | 11640 |
| HiC_scaffold_385 | g17827 | g17827.t1 | cds | g17827.t1.CDS2 | 11298 | 11640 |
| HiC_scaffold_385 | g17827 | g17827.t1 | exon | g17827.t1.exon3 | 11695 | 11767 |
| HiC_scaffold_385 | g17827 | g17827.t1 | cds | g17827.t1.CDS3 | 11695 | 11767 |
| HiC_scaffold_385 | g17827 | g17827.t1 | exon | g17827.t1.exon4 | 11856 | 12119 |
| HiC_scaffold_385 | g17827 | g17827.t1 | cds | g17827.t1.CDS4 | 11856 | 12119 |
| HiC_scaffold_385 | g17827 | g17827.t1 | TSS | g17827.t1 | NA | NA |
| HiC_scaffold_385 | g17827 | g17827.t1 | TTS | g17827.t1 | NA | NA |
Sequences
>g17827.t1 Gene=g17827 Length=750
ATGTATGGAGCAATTAATGCAAAAGGACCAGCATTAGTTTTTATGGATGCTCATATTGAA
GTGACACCTGGTTGGTTAGAACCACTACTTGATCCACTAGTAAAAAATCCATTATCATCA
ACAGTTCCAGTGGTTGATGGTTTGGATGCTAATACACTTGAATATAAATATAATGACAAT
CCAGAAACTTATATGATTGGTGGTTTTAAATGGAATTTAATTTATGAATGGATTCCAATA
AGGGAAGAAGAAAAGAAACGGATGGGACATTCATGTGCACCTATTAGAACACCAACAATG
CTTGGTGCATTTTTTGTTATTATGAAAGATAATTTTATTCGTGTTGGCATGTATGATGAA
CAATATGAAACTTGGGGTGCTGAAAATTTAGAATTGAGTTTTAAAGTTTGGATGTGTGGT
GGTGAATTATATCAAGTTCCATGCAGTCATGCAGCTCATATGTTTAGAAAACATCATCCT
TATACTTTCCCTGGAGGAGGAAATGAAGTTCGTCGAAATACAGATCGATTAGCTCATGTT
TGGTTGCAGGATTACAAACGTTTTTATTATCGAGCAACAAATTTTAAAAGCCGTGATTTT
GGTGACATCAGCAAGCAAGTTAAATTGAGAGAAAGCATCGGTTGCAAAAGTTTTAAATGG
TATATTGAAAATGTTTATCCAGATGTTCAATTTGATGATCGTGTCACTGATCCACCACCT
GCAGCGGGTGCTAATGTTTCAGTAGAATAA
>g17827.t1 Gene=g17827 Length=249
MYGAINAKGPALVFMDAHIEVTPGWLEPLLDPLVKNPLSSTVPVVDGLDANTLEYKYNDN
PETYMIGGFKWNLIYEWIPIREEEKKRMGHSCAPIRTPTMLGAFFVIMKDNFIRVGMYDE
QYETWGAENLELSFKVWMCGGELYQVPCSHAAHMFRKHHPYTFPGGGNEVRRNTDRLAHV
WLQDYKRFYYRATNFKSRDFGDISKQVKLRESIGCKSFKWYIENVYPDVQFDDRVTDPPP
AAGANVSVE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g17827.t1 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 1 | 233 | 0 |
| 2 | g17827.t1 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 1 | 234 | 0 |
| 3 | g17827.t1 | PANTHER | PTHR11675:SF43 | POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 1 | 1 | 234 | 0 |
| 1 | g17827.t1 | Pfam | PF00535 | Glycosyl transferase family 2 | 3 | 103 | 0 |
| 4 | g17827.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 2 | 228 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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. There were no conditions that were differentially expressed