General information for g4336.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative N-acetylgalactosaminyltransferase 4.
Parent gene
- The parent gene g4336 is located on chr_2: 1391277..1392233 (+ 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 | g4336 | g4336.t12 | isoform | g4336.t12 | 1391277 | 1392013 |
| chr_2 | g4336 | g4336.t12 | exon | g4336.t12.exon1 | 1391277 | 1391450 |
| chr_2 | g4336 | g4336.t12 | cds | g4336.t12.CDS1 | 1391403 | 1391450 |
| chr_2 | g4336 | g4336.t12 | exon | g4336.t12.exon2 | 1391514 | 1392013 |
| chr_2 | g4336 | g4336.t12 | cds | g4336.t12.CDS2 | 1391514 | 1391939 |
| chr_2 | g4336 | g4336.t12 | TTS | g4336.t12 | 1392013 | 1392013 |
| chr_2 | g4336 | g4336.t12 | TSS | g4336.t12 | NA | NA |
Sequences
>g4336.t12 Gene=g4336 Length=674
ATTTATCAACGTAAACCAGAAAGATTTTCAAAAGTTGATGTCGGTGACATTTCAAAACAA
TTAGAGATCAAAAAGAAAAATAAATGCAAACCATTCAGTTATTTCCTTGAAGTAGTTGCT
CCAGATATGCTTGAAAAATATCCGCCAACACAAATTGAATTTGCTAGTGGCACAATTGAA
AGTGTAGCTTTTGGTGACTATTGTATTGACTCAATGGGACAATTTTATCACGACCTTGGA
CTTTATAGATGTTCATACAATAAAAAACATCCATCAGGTCATCAACATTTCTTCCTTGGC
CATAATCGAGATATTGAATTTTATTCAGATGCAGCCTATTGTATTGATTCATACGGTTCA
AGTATCAGACTTGCAGCTTGTCATCATCGGCAAGGTACTCAATATTTCCGTTATGATCTC
GATACACAACATATTTATAGTCAAAAAGATGAACGCAAGTGCCTCGAAGCTGATTCTGCA
CGAAAAAAAATTGTCGTCAGTCGATGCAAAGATGATGAAATTAAGCAAAAATGGAAGTGG
GGAAATGTGAATGAAGACAATCTCAGACATTGGGAAGAGCGTGGTGCTAAAATAAAATAA
TTTTTAATAAGAAAATAAATGAATAAGAAAACTTATTGTAGTTAGGAAATAAAGAAATTT
TTTTAATGTTGACC
>g4336.t12 Gene=g4336 Length=157
MLEKYPPTQIEFASGTIESVAFGDYCIDSMGQFYHDLGLYRCSYNKKHPSGHQHFFLGHN
RDIEFYSDAAYCIDSYGSSIRLAACHHRQGTQYFRYDLDTQHIYSQKDERKCLEADSARK
KIVVSRCKDDEIKQKWKWGNVNEDNLRHWEERGAKIK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g4336.t12 | CDD | cd00161 | RICIN | 15 | 138 | 0.000 |
| 4 | g4336.t12 | Gene3D | G3DSA:2.80.10.50 | - | 9 | 152 | 0.000 |
| 1 | g4336.t12 | Pfam | PF00652 | Ricin-type beta-trefoil lectin domain | 14 | 136 | 0.000 |
| 5 | g4336.t12 | ProSiteProfiles | PS50231 | Lectin domain of ricin B chain profile. | 13 | 139 | 15.976 |
| 3 | g4336.t12 | SMART | SM00458 | ricin_3 | 13 | 139 | 0.000 |
| 2 | g4336.t12 | SUPERFAMILY | SSF50370 | Ricin B-like lectins | 12 | 140 | 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.
