General information for g2198.t3
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 g2198 is located on chr_3: 15939264..15940100 (+ 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_3 | g2198 | g2198.t3 | isoform | g2198.t3 | 15937728 | 15940100 |
| chr_3 | g2198 | g2198.t3 | exon | g2198.t3.exon1 | 15937728 | 15937879 |
| chr_3 | g2198 | g2198.t3 | cds | g2198.t3.CDS1 | 15937736 | 15937879 |
| chr_3 | g2198 | g2198.t3 | exon | g2198.t3.exon2 | 15937940 | 15937972 |
| chr_3 | g2198 | g2198.t3 | cds | g2198.t3.CDS2 | 15937940 | 15937972 |
| chr_3 | g2198 | g2198.t3 | exon | g2198.t3.exon3 | 15938089 | 15938199 |
| chr_3 | g2198 | g2198.t3 | cds | g2198.t3.CDS3 | 15938089 | 15938199 |
| chr_3 | g2198 | g2198.t3 | exon | g2198.t3.exon4 | 15939157 | 15939264 |
| chr_3 | g2198 | g2198.t3 | cds | g2198.t3.CDS4 | 15939157 | 15939264 |
| chr_3 | g2198 | g2198.t3 | exon | g2198.t3.exon5 | 15939325 | 15940100 |
| chr_3 | g2198 | g2198.t3 | cds | g2198.t3.CDS5 | 15939325 | 15939486 |
| chr_3 | g2198 | g2198.t3 | TTS | g2198.t3 | 15940899 | 15940899 |
| chr_3 | g2198 | g2198.t3 | TSS | g2198.t3 | NA | NA |
Sequences
>g2198.t3 Gene=g2198 Length=1180
AGGTATGGATGGATGATTACTCGAAATATTATTATCAAAGAATTGGATCAGATAAGGGTG
ATTTTGGTGATATCAGCTCTAGAGTTCAACTTAGAAAGGATTTAAAATGTAAAAGCTTCC
AATGGTATCTCGACACAATCTTCCCAGAATTGTTTATACCAGGTGATGCAGTGGCACAAG
GAGAGGTAAGAAACTTAGGATATGGAAATCGATCATGTCTTGATGCTCAAGGTGGTAAAA
AAGGGCTTCGAAAGCCTGTTTCTCTATATCCCTGTCATCGTCAAGGTGGAAATCAATATT
GGATGCTCTCAAAAACTGGAGAGATTCGCAGAGACGAAGCATGTTTGGATTATGCTGGCT
CTGATGTTATTCTTTATCCATGCCATGGTGGTAAAGGCAATCAGTTCTGGAATTATCGAT
TTGACACAAAGCAACTTCATCACAAATCATCAGATAGATGTATGGAAATCAGTAGTGATC
ATCAGAAACTATTGATGGTTGAATGCAATTCACATCGTGATGCACAAAAATGGTACTTTG
AAAATTACGACCCAAGCAAACTGTAAAAAGAAACAGGAAAATTCCTATCGCAATAAAAAC
AATATTTTTGATGTGATAACAAAAAATTGAATAATTGAGCCGGAAAGAGTGAAGAATAGT
TTAGTCCTATAAAATAATTTTTCAAATTTAGTTTAGAAAAATCCACTAAATGCCACTTTT
ATTACTACAGATAAGAAAGAAATGTGTTTTTGCCCCTAATAAAAATTAATTAATTCATTT
TCATTCAACTGCCGAATATAATATGAATTAGGTACTTTTATTATACATAAAATACAATGA
ATAAATTAGTCTTCATATCAATTAATAAAAGAAAAATACTTACACTATCAGGTAGTTCAG
TCATGTTTGATATGCACACAATTCTATTTAACGAGATATTTTTATTGCTCAATAAAAATA
AATTTAAATGAAAATGCATAAAGGATGAACATCGTACAAATTTTTTCACAACTTTTTTAG
AAAATGACTACGAAAACTTCATTAGAAAGAAACAACAAAAACTAACCTAATCTTTATATT
TCACATATCTCTTCTTCATATCCTTTTACTAACTTTAAAATTGTATGAGATGCTAAAATA
ATAAATAAGGAATTTAGTGAAGCATGAAGACATTCCAAAA
>g2198.t3 Gene=g2198 Length=185
MDDYSKYYYQRIGSDKGDFGDISSRVQLRKDLKCKSFQWYLDTIFPELFIPGDAVAQGEV
RNLGYGNRSCLDAQGGKKGLRKPVSLYPCHRQGGNQYWMLSKTGEIRRDEACLDYAGSDV
ILYPCHGGKGNQFWNYRFDTKQLHHKSSDRCMEISSDHQKLLMVECNSHRDAQKWYFENY
DPSKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g2198.t3 | CDD | cd00161 | RICIN | 58 | 177 | 0.000 |
| 7 | g2198.t3 | Gene3D | G3DSA:1.10.8.460 | - | 1 | 51 | 0.000 |
| 6 | g2198.t3 | Gene3D | G3DSA:2.80.10.50 | - | 53 | 183 | 0.000 |
| 2 | g2198.t3 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 1 | 184 | 0.000 |
| 3 | g2198.t3 | PANTHER | PTHR11675:SF117 | POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 5 | 1 | 184 | 0.000 |
| 1 | g2198.t3 | Pfam | PF00652 | Ricin-type beta-trefoil lectin domain | 57 | 175 | 0.000 |
| 8 | g2198.t3 | ProSiteProfiles | PS50231 | Lectin domain of ricin B chain profile. | 56 | 178 | 27.834 |
| 5 | g2198.t3 | SMART | SM00458 | ricin_3 | 57 | 178 | 0.000 |
| 4 | g2198.t3 | SUPERFAMILY | SSF50370 | Ricin B-like lectins | 51 | 179 | 0.000 |
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.
