General information for g8778.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ornithine decarboxylase.
Parent gene
- The parent gene g8778 is located on chr_2: 33099990..33100883 (+ 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 | g8778 | g8778.t2 | isoform | g8778.t2 | 33099990 | 33100883 |
| chr_2 | g8778 | g8778.t2 | exon | g8778.t2.exon1 | 33099990 | 33100883 |
| chr_2 | g8778 | g8778.t2 | cds | g8778.t2.CDS1 | 33100343 | 33100741 |
| chr_2 | g8778 | g8778.t2 | TTS | g8778.t2 | 33100879 | 33100879 |
| chr_2 | g8778 | g8778.t2 | TSS | g8778.t2 | NA | NA |
Sequences
>g8778.t2 Gene=g8778 Length=894
ATATCGAAAAGCACTGGGATTCTGTAAAGTTCTCTTCATGAAAGCTGAAGAACTTGGCTA
TAATCTCACAATTGTTGACATTGGTGGTGGCTTTCCTGGTATGTCAAGATATAAATTTTT
TTAATTTCTAGAAAATTAAAGAACTTTTTTATTTTTCAGGTGATAATGATAAAAGTATTG
ATGAAGTTTCAATCATTATCAATCAGAGCCTAGAAGAATATTTTCCAGAAAAGCACGTAC
GTGTCATTGCAGAACCTGGACGTTTTTATGTCGCTTCTGCTTTTACATTAATCACAAATG
TACATTCGAAGAAAAACATTTACAATCCATTAAGCGATGAAATTGAGAGCACTATGCTTT
ATATCAATGATGGTGTTTATGCTTCATTTAATTGTCTCCTATATGATCATCAAATTGTAA
AACCTAAATTATTAAAAGACCACAGTGAGACTGAAAAGACTATAAAGACAACAATTTTCG
GCCCAACGTGTGATGCACTTGATGAAATCATTGTAGGTGCAAATATGCCTGAATCAATTG
ATCTTGGGGATTTTATTTACTTTGAAAATATGGGAGCTTATACATTGCCTGTTGCATCAC
CATTCAATGGTTTTCCACTTCCAAAAGTTTATCATTTCATTGAACGCGATATGTGGCAAA
TGGTTCGTTCAATGATCCCTGTGGAAGCTAACGACAGATTCATAGAAGATTTCATTGGAA
AAACTATTGAAATTGTCTCAACTACCGCCTAATTTTTTATTTTCTTTTTCATTCTATCGT
CGCATTATTTTATTAGCAAAATTATTATGAAAAATCAAATGTAATCGAAAATTTTATTAT
AAAATTTGCTTGATTTAATAAATATTAAAGGCAGCCAAAAGCCTAGCAAGTAAA
>g8778.t2 Gene=g8778 Length=132
MLYINDGVYASFNCLLYDHQIVKPKLLKDHSETEKTIKTTIFGPTCDALDEIIVGANMPE
SIDLGDFIYFENMGAYTLPVASPFNGFPLPKVYHFIERDMWQMVRSMIPVEANDRFIEDF
IGKTIEIVSTTA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g8778.t2 | Gene3D | G3DSA:2.40.37.10 | Lyase | 1 | 110 | 0 |
| 2 | g8778.t2 | PANTHER | PTHR11482 | ARGININE/DIAMINOPIMELATE/ORNITHINE DECARBOXYLASE | 1 | 105 | 0 |
| 3 | g8778.t2 | PANTHER | PTHR11482:SF6 | ORNITHINE DECARBOXYLASE 1-RELATED | 1 | 105 | 0 |
| 1 | g8778.t2 | Pfam | PF00278 | Pyridoxal-dependent decarboxylase, C-terminal sheet domain | 2 | 74 | 0 |
| 4 | g8778.t2 | SUPERFAMILY | SSF50621 | Alanine racemase C-terminal domain-like | 1 | 106 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0003824 | catalytic activity | MF |
| GO:0006596 | polyamine biosynthetic process | BP |
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.
