General information for g4450.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Putative oxidoreductase GLYR1-like protein.
Parent gene
- The parent gene g4450 is located on chr_2: 2441535..2442282 (+ 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 | g4450 | g4450.t2 | isoform | g4450.t2 | 2441535 | 2442282 |
| chr_2 | g4450 | g4450.t2 | exon | g4450.t2.exon1 | 2441535 | 2442282 |
| chr_2 | g4450 | g4450.t2 | cds | g4450.t2.CDS1 | 2441638 | 2442282 |
| chr_2 | g4450 | g4450.t2 | TTS | g4450.t2 | 2442564 | 2442564 |
| chr_2 | g4450 | g4450.t2 | TSS | g4450.t2 | NA | NA |
Sequences
>g4450.t2 Gene=g4450 Length=748
GCTTATTTGTGTATCAGATTGTGATGCAGTGAAAGAAGTTGTGTGCCAAGGAGAAACTGG
AATTTTGGCCGCAGATACAAATTCATTAGATAAGGGTGTTATAATGCTTAGTTCAATTGA
CTGTGAAACATCTCGTGACATTCAAACAGCTTTGTCTATGAAATCAATTCGTTATCTCGA
AGCACAATTACAAGGGCCAAAAGATGAAACGAAAGATAAACTAATTGTTATCACAGCTGG
TGATAATTCATTATATCTGGATAGTAAGAGCTGTTTGGAATCATTTGCTAAAGACACATA
TTATTTGGGAGACGATGTCGAATCAGCAATTAAAATGAATTTAGTACTTCATTCGATTGC
AGGTGTTCAATTGGCTGCATTGACAGAGGCACTTGCTTTAGCGGATTCACTTGGATTACA
GTTACGCGATATTCTTGAAATTATTGAACTTAGCAACATCAATTCTGATTTTATCGTTGA
GAAAGGAAAATATATTGTTGATGAAAAATTCCGCGATCCATCAACAAAAATTGAGACAAC
TTCGAAAGATTTAAAAATGGTCATTGAGCTTGGTGATTCTTTAGATCAACCATTACCACT
TGTAGCTGCATCAAAAGAACTATTTAAAGTGGCAAAACGTATGGGTTTTGAAGAAAGTGA
TTCAAGTGCAGTCTACTTTGCTTCAAATTTTAACAAATACATCTATGAGTTTGCGAATTA
TTCTGCCGCTGAGAATGGAACTATGTAA
>g4450.t2 Gene=g4450 Length=214
MLSSIDCETSRDIQTALSMKSIRYLEAQLQGPKDETKDKLIVITAGDNSLYLDSKSCLES
FAKDTYYLGDDVESAIKMNLVLHSIAGVQLAALTEALALADSLGLQLRDILEIIELSNIN
SDFIVEKGKYIVDEKFRDPSTKIETTSKDLKMVIELGDSLDQPLPLVAASKELFKVAKRM
GFEESDSSAVYFASNFNKYIYEFANYSAAENGTM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g4450.t2 | Gene3D | G3DSA:3.40.50.12340 | - | 1 | 69 | 7.4e-06 |
| 6 | g4450.t2 | Gene3D | G3DSA:1.10.1040.10 | - | 70 | 195 | 0.0e+00 |
| 2 | g4450.t2 | PANTHER | PTHR43580 | OXIDOREDUCTASE GLYR1-RELATED | 2 | 194 | 0.0e+00 |
| 3 | g4450.t2 | PANTHER | PTHR43580:SF2 | OXIDOREDUCTASE GLYR1-RELATED | 2 | 194 | 0.0e+00 |
| 1 | g4450.t2 | Pfam | PF14833 | NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase | 80 | 191 | 0.0e+00 |
| 4 | g4450.t2 | SUPERFAMILY | SSF48179 | 6-phosphogluconate dehydrogenase C-terminal domain-like | 74 | 193 | 0.0e+00 |
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:0051287 | NAD binding | MF |
| GO:0055114 | NA | NA |
| GO:0016491 | oxidoreductase activity | MF |
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.
