General information for g6549.t16
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Polypeptide N-acetylgalactosaminyltransferase 5.
Parent gene
- The parent gene g6549 is located on chr_2: 17612608..17613894 (- 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_2 | g6549 | g6549.t16 | isoform | g6549.t16 | 17610100 | 17611336 |
| chr_2 | g6549 | g6549.t16 | exon | g6549.t16.exon1 | 17610100 | 17610268 |
| chr_2 | g6549 | g6549.t16 | cds | g6549.t16.CDS1 | 17610101 | 17610268 |
| chr_2 | g6549 | g6549.t16 | exon | g6549.t16.exon2 | 17610327 | 17610355 |
| chr_2 | g6549 | g6549.t16 | cds | g6549.t16.CDS2 | 17610327 | 17610355 |
| chr_2 | g6549 | g6549.t16 | exon | g6549.t16.exon3 | 17610418 | 17610493 |
| chr_2 | g6549 | g6549.t16 | cds | g6549.t16.CDS3 | 17610418 | 17610493 |
| chr_2 | g6549 | g6549.t16 | exon | g6549.t16.exon4 | 17610549 | 17610782 |
| chr_2 | g6549 | g6549.t16 | cds | g6549.t16.CDS4 | 17610549 | 17610599 |
| chr_2 | g6549 | g6549.t16 | exon | g6549.t16.exon5 | 17610849 | 17610949 |
| chr_2 | g6549 | g6549.t16 | exon | g6549.t16.exon6 | 17611007 | 17611230 |
| chr_2 | g6549 | g6549.t16 | exon | g6549.t16.exon7 | 17611334 | 17611336 |
| chr_2 | g6549 | g6549.t16 | TSS | g6549.t16 | NA | NA |
| chr_2 | g6549 | g6549.t16 | TTS | g6549.t16 | NA | NA |
Sequences
>g6549.t16 Gene=g6549 Length=836
AGACTGTCGAACTAAAACATACCCAAGTAGATTGCCAACAACAAGTATAGTTATAGTTTT
TCATAATGAAGCATGGAGCACATTGCTCAGAACAATATGGAGTGTAATTAATCGTTCACC
ACGACCGTTATTAAAAGAAATCATTCTCGTTGATGATGCAAGCGAGCGTGAATATTTAGG
TGAAAAATTAGAGGAATATGTAAAAACACTGCCTGTTCCAACATCAGTTTTACGCACCGG
TAAAAGGTCTGGTCTCATTAGAGCACGTTTATTGGGTGCTGCTGCTGTAAAAGGTCAAGT
TATAACTTTTCTCGATGCTCATTGTGAATGTACTGAAGGTTGGTTAGAACCTTTGTTGTC
GAGAATTGCTTTGGACAGAAAAACAGTTGTTTGTCCAATAATCGATGTTATTAGTGATGA
AACGTTTGAATATGTTACTGCTTCTGATCAAACTTGGGGTGGTTTTAATTGGAAGCTCAA
TTTTAGATGGTATCGAGTACCTGCTAGAGAAATGGCAAGAAGAAATAATGATAGGACTTC
ACCTCTTCGAACGCCAACTATGGCGGGTGGTTTGTTTTCAATAGATAAAGATTATTTCTA
TGAAATTGGTTCATATGACGAGGGAATGGATATTTGGGGTGGTGAAAATTTGGAAATGAG
TTTTCGTATTTGGCAATGCGGCGGAATTTTGGAAATTGCTCCCTGTAGCCACGTTGGTCA
TGTTTTCAGAGATAAAAGTCCATATACTTTCCCTGGCGGTGTGGCAAATATTGTACTTAA
AAATGCTGCTCGTGTTGCAGCTGTTTGGCTTGACGAATGGAAAGAATTTTACTTCG
>g6549.t16 Gene=g6549 Length=108
MARRNNDRTSPLRTPTMAGGLFSIDKDYFYEIGSYDEGMDIWGGENLEMSFRIWQCGGIL
EIAPCSHVGHVFRDKSPYTFPGGVANIVLKNAARVAAVWLDEWKEFYF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g6549.t16 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 1 | 108 | 0.0e+00 |
| 2 | g6549.t16 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 1 | 108 | 0.0e+00 |
| 3 | g6549.t16 | PANTHER | PTHR11675:SF101 | POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 1 | 1 | 108 | 0.0e+00 |
| 1 | g6549.t16 | Pfam | PF02709 | N-terminal domain of galactosyltransferase | 12 | 67 | 1.3e-06 |
| 4 | g6549.t16 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 12 | 107 | 0.0e+00 |
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.
