General information for g9378.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Sorbitol dehydrogenase.
Parent gene
- The parent gene g9378 is located on chr_1: 2304981..2306104 (- 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_1 | g9378 | g9378.t4 | TTS | g9378.t4 | 2304507 | 2304507 |
| chr_1 | g9378 | g9378.t4 | isoform | g9378.t4 | 2304981 | 2306104 |
| chr_1 | g9378 | g9378.t4 | exon | g9378.t4.exon1 | 2304981 | 2305213 |
| chr_1 | g9378 | g9378.t4 | cds | g9378.t4.CDS1 | 2305176 | 2305213 |
| chr_1 | g9378 | g9378.t4 | exon | g9378.t4.exon2 | 2305305 | 2305745 |
| chr_1 | g9378 | g9378.t4 | cds | g9378.t4.CDS2 | 2305305 | 2305745 |
| chr_1 | g9378 | g9378.t4 | exon | g9378.t4.exon3 | 2305799 | 2305950 |
| chr_1 | g9378 | g9378.t4 | cds | g9378.t4.CDS3 | 2305799 | 2305886 |
| chr_1 | g9378 | g9378.t4 | exon | g9378.t4.exon4 | 2306000 | 2306104 |
| chr_1 | g9378 | g9378.t4 | TSS | g9378.t4 | 2306154 | 2306154 |
Sequences
>g9378.t4 Gene=g9378 Length=931
GCTTATCAATTTAGCTTTCGTCAAGTGTGCATCTTCAAATATAATCACTTATTTATTTTT
ACAAAACAAATTTATTATTGCACAATCTCTCTCTCTCACATGTGTCAATCATTTGCTCGC
GAGTCTCGTGATAATAAACAAGTACTAAATCTATAAATAAAATACAAAAATGGCTTCAAA
TAATTTAACTGCTGTGCTTTATGGAGTTGAAGATTTGCGATTAGAAAATCAAGAAATTCC
TGAAATTAAAGATGATGAGGTATTAATCGAGATGGATTGCGTTGGAATTTGTGGAAGTGA
TGTACATTATTTAGTTCATGGTCGAATTGGTGACTTCATTCTAAAAGATAAGATGATAAT
TGGTCATGAAAGTAGCGGAGTTGTAAGAAAACTTGGAAAAAATGTGAAGAATCTGCAAGT
TAATGATAGAGTTGCAATCGAACCAGGTGTCGCTTGTCGTTTATGTGATTATTGCAAGAC
TGGGAAATATAATTTGTGTCCCGAGATGAAATTTTGTGCAACACCACCGTACGATGGAAA
CCTGAGAAAATTTTATGCACATGCAGCTGATTTTTGTTTCAAATTACCTGATCATGTTAC
AATGGAAGAGGCCGCTCTCTTAGAACCGTTAAGTGTGGGTGTTCATGCTTGTCGACGTGC
ACAAGTAAGCTTAGGTGACAACTTATTGATTTTAGGCAGATATGTGCAAAAGAAATGGGA
GCAAGTAAAGTCATAATCACTGACCTGCTTCAATCCAGACTTGATGTTGCCAAAGAATTG
GGTGCAGACTATACACTTCTTGTTAATAAAAATGATACAGAAAAAGAACTTGTAAAGAAA
ATTCATAATTTGCTTGGTAATGTTGCGCCAAATAAATCAATCGATTGTAGTGGATTTGAA
GCAACTAATCGATTAGGTCTTGCAGCAACTG
>g9378.t4 Gene=g9378 Length=188
MASNNLTAVLYGVEDLRLENQEIPEIKDDEVLIEMDCVGICGSDVHYLVHGRIGDFILKD
KMIIGHESSGVVRKLGKNVKNLQVNDRVAIEPGVACRLCDYCKTGKYNLCPEMKFCATPP
YDGNLRKFYAHAADFCFKLPDHVTMEEAALLEPLSVGVHACRRAQVSLGDNLLILGRYVQ
KKWEQVKS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g9378.t4 | Gene3D | G3DSA:3.90.180.10 | - | 1 | 186 | 1.4E-59 |
| 2 | g9378.t4 | PANTHER | PTHR43161:SF9 | SORBITOL DEHYDROGENASE | 4 | 176 | 2.4E-81 |
| 3 | g9378.t4 | PANTHER | PTHR43161 | SORBITOL DEHYDROGENASE | 4 | 176 | 2.4E-81 |
| 1 | g9378.t4 | Pfam | PF08240 | Alcohol dehydrogenase GroES-like domain | 29 | 138 | 1.9E-27 |
| 5 | g9378.t4 | ProSitePatterns | PS00059 | Zinc-containing alcohol dehydrogenases signature. | 65 | 79 | - |
| 4 | g9378.t4 | SUPERFAMILY | SSF50129 | GroES-like | 7 | 175 | 1.1E-55 |
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:0008270 | zinc ion 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. There were no conditions that were differentially expressed