General information for g16328.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ornithine decarboxylase 2.
Parent gene
- The parent gene g16328 is located on chr_4: 9089232..9090730 (- 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_4 | g16328 | g16328.t1 | TTS | g16328.t1 | 9089193 | 9089193 |
| chr_4 | g16328 | g16328.t1 | isoform | g16328.t1 | 9089232 | 9090730 |
| chr_4 | g16328 | g16328.t1 | exon | g16328.t1.exon1 | 9089232 | 9089283 |
| chr_4 | g16328 | g16328.t1 | cds | g16328.t1.CDS1 | 9089232 | 9089283 |
| chr_4 | g16328 | g16328.t1 | exon | g16328.t1.exon2 | 9089377 | 9089766 |
| chr_4 | g16328 | g16328.t1 | cds | g16328.t1.CDS2 | 9089377 | 9089766 |
| chr_4 | g16328 | g16328.t1 | exon | g16328.t1.exon3 | 9089828 | 9089951 |
| chr_4 | g16328 | g16328.t1 | cds | g16328.t1.CDS3 | 9089828 | 9089951 |
| chr_4 | g16328 | g16328.t1 | exon | g16328.t1.exon4 | 9090673 | 9090730 |
| chr_4 | g16328 | g16328.t1 | cds | g16328.t1.CDS4 | 9090673 | 9090730 |
| chr_4 | g16328 | g16328.t1 | TSS | g16328.t1 | NA | NA |
Sequences
>g16328.t1 Gene=g16328 Length=624
ATGATGAAAAAACAGCCAGAAGAATTTGAAGAAATATCTCAAGAATGCAATGACAAAAGT
GGCTTTCCAGGAGATAATTTTAATCGAATCAAAGAATTTTCTTCCATAATTAATGATACA
TTGAATCAAAATTTTCCACTTGATGAGTTTCCTAATCTAGAAATTGTTTCTGAACCAGGA
AGATATTTTGTTGAATCTGCTTTTACTCTCGTCACTCAAATTCACTCACGAAAAATCACA
AGAGATGCTAATGGAAAAATTGTTAGTGTCATGTATTATCTGAACGAAGGAATTTATTCA
AATTTCCTTTTCATACCACTTGGACCTGAAAAAGTGACACCAAAAATTCTTTCACATAAA
CGTACGAATGAAAAATTTAAAACAACACTTTGGGGTCCAACACTTGATTCAATTGACAAA
ATCTGTGAAAACATTGAATTAGAATTGCTTGAAATTGATGATGTTATTTATTTTATTAAT
ATGGGAGCTTACACAACTACTGTGGGCACAAACTTCAATAGTTTTTCAGCAAAAACAAAT
ATTGTTTACTTTCTGGAAAAAAATATTGAAAGCAAAAAATTGAACACTGAACTGTTTGAT
TTTAACTTCATCAACGACACATGA
>g16328.t1 Gene=g16328 Length=207
MMKKQPEEFEEISQECNDKSGFPGDNFNRIKEFSSIINDTLNQNFPLDEFPNLEIVSEPG
RYFVESAFTLVTQIHSRKITRDANGKIVSVMYYLNEGIYSNFLFIPLGPEKVTPKILSHK
RTNEKFKTTLWGPTLDSIDKICENIELELLEIDDVIYFINMGAYTTTVGTNFNSFSAKTN
IVYFLEKNIESKKLNTELFDFNFINDT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g16328.t1 | Gene3D | G3DSA:2.40.37.10 | Lyase | 24 | 195 | 0 |
| 2 | g16328.t1 | PANTHER | PTHR11482 | ARGININE/DIAMINOPIMELATE/ORNITHINE DECARBOXYLASE | 21 | 192 | 0 |
| 3 | g16328.t1 | PANTHER | PTHR11482:SF6 | ORNITHINE DECARBOXYLASE 1-RELATED | 21 | 192 | 0 |
| 5 | g16328.t1 | PRINTS | PR01179 | Ornithine/diaminopimelate/arginine (ODA) decarboxylase family signature | 55 | 74 | 0 |
| 4 | g16328.t1 | PRINTS | PR01179 | Ornithine/diaminopimelate/arginine (ODA) decarboxylase family signature | 162 | 175 | 0 |
| 1 | g16328.t1 | Pfam | PF00278 | Pyridoxal-dependent decarboxylase, C-terminal sheet domain | 62 | 162 | 0 |
| 6 | g16328.t1 | SUPERFAMILY | SSF50621 | Alanine racemase C-terminal domain-like | 48 | 179 | 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. There were no conditions that were differentially expressed