General information for g4336.t9
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.t9 | isoform | g4336.t9 | 1391187 | 1391939 |
| chr_2 | g4336 | g4336.t9 | exon | g4336.t9.exon1 | 1391187 | 1391195 |
| chr_2 | g4336 | g4336.t9 | exon | g4336.t9.exon2 | 1391250 | 1391450 |
| chr_2 | g4336 | g4336.t9 | cds | g4336.t9.CDS1 | 1391256 | 1391450 |
| chr_2 | g4336 | g4336.t9 | exon | g4336.t9.exon3 | 1391514 | 1391939 |
| chr_2 | g4336 | g4336.t9 | cds | g4336.t9.CDS2 | 1391514 | 1391939 |
| chr_2 | g4336 | g4336.t9 | TTS | g4336.t9 | 1392013 | 1392013 |
| chr_2 | g4336 | g4336.t9 | TSS | g4336.t9 | NA | NA |
Sequences
>g4336.t9 Gene=g4336 Length=636
GTTGCTGAAGTATGGATGGACGAATATAAAGAATACATTTATCAACGTAAACCAGAAAGA
TTTTCAAAAGTTGATGTCGGTGACATTTCAAAACAATTAGAGATCAAAAAGAAAAATAAA
TGCAAACCATTCAGTTATTTCCTTGAAGTAGTTGCTCCAGATATGCTTGAAAAATATCCG
CCAACACAAATTGAATTTGCTAGTGGCACAATTGAAAGTGTAGCTTTTGGTGACTATTGT
ATTGACTCAATGGGACAATTTTATCACGACCTTGGACTTTATAGATGTTCATACAATAAA
AAACATCCATCAGGTCATCAACATTTCTTCCTTGGCCATAATCGAGATATTGAATTTTAT
TCAGATGCAGCCTATTGTATTGATTCATACGGTTCAAGTATCAGACTTGCAGCTTGTCAT
CATCGGCAAGGTACTCAATATTTCCGTTATGATCTCGATACACAACATATTTATAGTCAA
AAAGATGAACGCAAGTGCCTCGAAGCTGATTCTGCACGAAAAAAAATTGTCGTCAGTCGA
TGCAAAGATGATGAAATTAAGCAAAAATGGAAGTGGGGAAATGTGAATGAAGACAATCTC
AGACATTGGGAAGAGCGTGGTGCTAAAATAAAATAA
>g4336.t9 Gene=g4336 Length=206
MDEYKEYIYQRKPERFSKVDVGDISKQLEIKKKNKCKPFSYFLEVVAPDMLEKYPPTQIE
FASGTIESVAFGDYCIDSMGQFYHDLGLYRCSYNKKHPSGHQHFFLGHNRDIEFYSDAAY
CIDSYGSSIRLAACHHRQGTQYFRYDLDTQHIYSQKDERKCLEADSARKKIVVSRCKDDE
IKQKWKWGNVNEDNLRHWEERGAKIK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g4336.t9 | CDD | cd00161 | RICIN | 64 | 187 | 0.000 |
| 7 | g4336.t9 | Gene3D | G3DSA:1.10.8.460 | - | 1 | 51 | 0.000 |
| 6 | g4336.t9 | Gene3D | G3DSA:2.80.10.50 | - | 58 | 201 | 0.000 |
| 2 | g4336.t9 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 1 | 186 | 0.000 |
| 3 | g4336.t9 | PANTHER | PTHR11675:SF68 | POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE | 1 | 186 | 0.000 |
| 1 | g4336.t9 | Pfam | PF00652 | Ricin-type beta-trefoil lectin domain | 63 | 185 | 0.000 |
| 8 | g4336.t9 | ProSiteProfiles | PS50231 | Lectin domain of ricin B chain profile. | 62 | 188 | 15.976 |
| 5 | g4336.t9 | SMART | SM00458 | ricin_3 | 62 | 188 | 0.000 |
| 4 | g4336.t9 | SUPERFAMILY | SSF50370 | Ricin B-like lectins | 61 | 189 | 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.
