General information for g4335.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as N-acetylgalactosaminyltransferase 6.
Parent gene
- The parent gene g4335 is located on chr_2: 1387099..1388902 (+ 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 | g4335 | g4335.t4 | isoform | g4335.t4 | 1386254 | 1387831 |
| chr_2 | g4335 | g4335.t4 | exon | g4335.t4.exon1 | 1386254 | 1386332 |
| chr_2 | g4335 | g4335.t4 | exon | g4335.t4.exon2 | 1386724 | 1387174 |
| chr_2 | g4335 | g4335.t4 | cds | g4335.t4.CDS1 | 1386946 | 1387174 |
| chr_2 | g4335 | g4335.t4 | exon | g4335.t4.exon3 | 1387237 | 1387276 |
| chr_2 | g4335 | g4335.t4 | cds | g4335.t4.CDS2 | 1387237 | 1387276 |
| chr_2 | g4335 | g4335.t4 | exon | g4335.t4.exon4 | 1387341 | 1387364 |
| chr_2 | g4335 | g4335.t4 | cds | g4335.t4.CDS3 | 1387341 | 1387364 |
| chr_2 | g4335 | g4335.t4 | exon | g4335.t4.exon5 | 1387431 | 1387461 |
| chr_2 | g4335 | g4335.t4 | cds | g4335.t4.CDS4 | 1387431 | 1387461 |
| chr_2 | g4335 | g4335.t4 | exon | g4335.t4.exon6 | 1387518 | 1387712 |
| chr_2 | g4335 | g4335.t4 | cds | g4335.t4.CDS5 | 1387518 | 1387712 |
| chr_2 | g4335 | g4335.t4 | exon | g4335.t4.exon7 | 1387771 | 1387831 |
| chr_2 | g4335 | g4335.t4 | cds | g4335.t4.CDS6 | 1387771 | 1387830 |
| chr_2 | g4335 | g4335.t4 | TTS | g4335.t4 | 1388421 | 1388421 |
| chr_2 | g4335 | g4335.t4 | TSS | g4335.t4 | NA | NA |
Sequences
>g4335.t4 Gene=g4335 Length=881
TGGAGAATTAGAAGAATATATAGAGAAGCATTTGAAACACATTGTTAAACTTTATGTTTT
ACCTCGACGCTCTGGATTGATTTGGGCACGCTTAGCTGGTGCTCGTGCTGCGAGTGGCGA
TGTGTTACTTTTCCTCGATTCACATACTGAAGCGTCAACAAATTTCTTGCCACCACTTAT
TGAACCAATTGCTAAAGATTATCGTACATGTGTTTGTCCTTTTGTTGATGTAATTGATTT
CAAGACTTTTGCCTATCATCCACAAGGCGATGGAAGTAGAGGAATTTTCGATTGGAACGG
AATGCATTATCATCATATGCCACTAAGACCTGGTGATCAAGAACATCCATGGTCACTTTA
TGAAAATCCTGTCATGGTCGGTGGATTGTTTGCAATATCAGCTAAATTCTTTTGGGAACT
GGGCGGTTATGACCCAGGTCTAGATATCTGGGGAGGTGAACAATACGAATTGAGTTTTAA
AATTTGGCTTTGTGGTGGCAAAATGTATGATGCACCGTGCTCAAGAATTGGTCATGTTTT
TAGAGGTGGAATGCCATTTCCTAATGATCGCAAAGGAATTGATTTCATAACAATAAATTA
CAAGCGTGTAGCGGAAGTATGGTTGGACGAATACAAAGAGTATTTGTATAAAAGAGATCC
TGACCGATATGCACGAGTGAGTGCTGGAGACTTAAGCTATCAATTTTATATTAAAAAGAG
GCAACAATGCAAACCATTCAAATATTTTTTGGATGTGGTAGCACCAGATATGAAGGAACG
ATATCCACTAGAGGAACCACCAGAATTTGCTTCAGGCGCTATTCAATCGATGGCCGATGA
AAAGTTTTGCATCGATAAACTGAATCGTCCGAAAGAGCAAC
>g4335.t4 Gene=g4335 Length=193
MHYHHMPLRPGDQEHPWSLYENPVMVGGLFAISAKFFWELGGYDPGLDIWGGEQYELSFK
IWLCGGKMYDAPCSRIGHVFRGGMPFPNDRKGIDFITINYKRVAEVWLDEYKEYLYKRDP
DRYARVSAGDLSYQFYIKKRQQCKPFKYFLDVVAPDMKERYPLEEPPEFASGAIQSMADE
KFCIDKLNRPKEQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g4335.t4 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 1 | 164 | 0.0e+00 |
| 2 | g4335.t4 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 1 | 186 | 0.0e+00 |
| 3 | g4335.t4 | PANTHER | PTHR11675:SF40 | POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE-LIKE 6 | 1 | 186 | 0.0e+00 |
| 1 | g4335.t4 | Pfam | PF02709 | N-terminal domain of galactosyltransferase | 17 | 77 | 1.1e-06 |
| 4 | g4335.t4 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 15 | 156 | 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.
