General information for g1140.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Polypeptide N-acetylgalactosaminyltransferase 1.
Parent gene
- The parent gene g1140 is located on chr_3: 8383259..8385510 (- 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 | g1140 | g1140.t3 | isoform | g1140.t3 | 8382620 | 8384036 |
| chr_3 | g1140 | g1140.t3 | exon | g1140.t3.exon1 | 8382620 | 8383362 |
| chr_3 | g1140 | g1140.t3 | TTS | g1140.t3 | 8382645 | 8382645 |
| chr_3 | g1140 | g1140.t3 | cds | g1140.t3.CDS1 | 8383259 | 8383362 |
| chr_3 | g1140 | g1140.t3 | exon | g1140.t3.exon2 | 8383421 | 8383536 |
| chr_3 | g1140 | g1140.t3 | cds | g1140.t3.CDS2 | 8383421 | 8383536 |
| chr_3 | g1140 | g1140.t3 | exon | g1140.t3.exon3 | 8383613 | 8383698 |
| chr_3 | g1140 | g1140.t3 | cds | g1140.t3.CDS3 | 8383613 | 8383698 |
| chr_3 | g1140 | g1140.t3 | exon | g1140.t3.exon4 | 8383774 | 8384036 |
| chr_3 | g1140 | g1140.t3 | cds | g1140.t3.CDS4 | 8383774 | 8384025 |
| chr_3 | g1140 | g1140.t3 | TSS | g1140.t3 | NA | NA |
Sequences
>g1140.t3 Gene=g1140 Length=1208
AGCTTCTTTATATGAATAGACCTGATTTGAGAAATCATCCTGATGTAGGCGACGTGACAC
ACAGAAAAGTATTGAGAGATAAACTTAAGTGCAAATCCTTTGAATGGTATATGCAAAATA
TATACCCTGAAAAATTCATTCCAACAAGAAATGTTCAAAATTATGGACGAATATCAGCTA
TAGAAGACGATCGATTTTGCTTTGATGATTTACAACAGAATATTGATGAGCCATATAATT
TAGGAGTTTATTCATGCTATAAGCATGATATTGCACCATCACAACTTTTCTCTTATACTT
ATAATAAAGTATTACGAACAGAAAGAAGTTGTGCAACTATCGATGATCGACGAAGCACTA
AATATATTGTGATGATTCCTTGCAATAGTGACGATGAAGTTACAGATACTTGGGTTCATA
CTAGTTTTAATCAATTTAAACATGAACAAACGGGTCTTTGCATAGATCGAAAAAATTTGG
ATAAAAATTTACTTCATGCAGCTGTATGTGATTCATTATCAAAAACACAAAAATGGGAAT
TTCAAAAGACAAAAAAGCAGAGCATTTAGAATCTCATGACTTTTTATATTAGATGTATAT
CGTTGTTACTTAAAACTATTTTGTTGGACTTTATTAAACTTATGCATACACACTGACAAA
CATTTACCGTCCGTTCGTTCAGTGACTTTTATCAATTGATGGAACTTTTTTGCTGCTTCA
CAAACAACGAATTTAAATGTGAACAAAAAAAATCAATTTCTTGCTTGAAAAAGAGGGAGA
AAAGAAAAGAAAATTTCGTGTCTAACGTCTATGAGCTAAAACTAATGACTTAAATTGATA
ACAAATTAAACTTTTTTATGGTAAATGTTGTACATAATGAGTAAAAGATCTGTTTAAATT
ATTAAGAACAAAAATTTTATTGAAACGAACTTATTAACATTTTGAGTATTCAACATGCAC
TTGAGAAAAAATAAAGTTTTAGGTATATTTTTGATGTCGAATAATTAAATTAAAAGTGCC
AGAAAATCCCAAATTAACATATTAGATAGATCAAAAAAGAAAATCAATTCTTTGGGAATG
CTTATAAAAAATTGATACTTAAAGCCACTCTAAATTTGATAACACTAAAATGCTTTTTGT
TATTTTTAATAAAGAAAGAAGAGAGAGATGTGCAAATAAATAAATAAAATATTGAATTAT
TTTATTTT
>g1140.t3 Gene=g1140 Length=185
MNRPDLRNHPDVGDVTHRKVLRDKLKCKSFEWYMQNIYPEKFIPTRNVQNYGRISAIEDD
RFCFDDLQQNIDEPYNLGVYSCYKHDIAPSQLFSYTYNKVLRTERSCATIDDRRSTKYIV
MIPCNSDDEVTDTWVHTSFNQFKHEQTGLCIDRKNLDKNLLHAAVCDSLSKTQKWEFQKT
KKQSI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g1140.t3 | CDD | cd00161 | RICIN | 52 | 177 | 0.000000 |
| 6 | g1140.t3 | Gene3D | G3DSA:1.10.8.460 | - | 1 | 44 | 0.000000 |
| 5 | g1140.t3 | Gene3D | G3DSA:2.80.10.50 | - | 50 | 183 | 0.000000 |
| 2 | g1140.t3 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 3 | 182 | 0.000000 |
| 1 | g1140.t3 | Pfam | PF00652 | Ricin-type beta-trefoil lectin domain | 51 | 175 | 0.000000 |
| 7 | g1140.t3 | ProSiteProfiles | PS50231 | Lectin domain of ricin B chain profile. | 50 | 178 | 14.472000 |
| 4 | g1140.t3 | SMART | SM00458 | ricin_3 | 49 | 178 | 0.000015 |
| 3 | g1140.t3 | SUPERFAMILY | SSF50370 | Ricin B-like lectins | 35 | 178 | 0.000000 |
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.
