General information for g7125.t12
Yuki Yoshida
6/2/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Retinol dehydrogenase 14.
Parent gene
- The parent gene g7125 is located on chr_2: 21356954..21357907 (+ 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 | g7125 | g7125.t12 | TSS | g7125.t12 | 21356696 | 21356696 |
| chr_2 | g7125 | g7125.t12 | isoform | g7125.t12 | 21356954 | 21357907 |
| chr_2 | g7125 | g7125.t12 | exon | g7125.t12.exon1 | 21356954 | 21357410 |
| chr_2 | g7125 | g7125.t12 | cds | g7125.t12.CDS1 | 21357268 | 21357410 |
| chr_2 | g7125 | g7125.t12 | exon | g7125.t12.exon2 | 21357469 | 21357907 |
| chr_2 | g7125 | g7125.t12 | cds | g7125.t12.CDS2 | 21357469 | 21357907 |
| chr_2 | g7125 | g7125.t12 | TTS | g7125.t12 | 21357983 | 21357983 |
Sequences
>g7125.t12 Gene=g7125 Length=896
ATTCAGTACAAGGAGAACGATTTAAAAAATCTATTGTTGTAGATGGAAAAGTATTTATTG
TTACTGGAGCTAACACAGGAATAGGCAAAGAAACTGCAAAAAATCTTGCGAAAAGAAGAG
GAATTGTTTATTTAGCATGTAGAGATTTACACAAATGCGAAGCAGCAAGAAAAGAGATAA
TTCTGGCTACAAGAAATAAAAATGTCTTTTGTCGTGAACTTGATTTAGCTTCATTTAGTT
CAATTAGAAGTTTTGTAAAGAGATTTAAATCAGAGCAAAATCGTTTGGATGTTTTAATTA
ATAACGCAGGCGTTATGAGAATCCCACAAAAGCTTGTTACCCAAGAAGGATTCGAAATGC
AGATTGGTACAAATCATTTAGGCCATTTTTTACTTACAAATTTGTTATTAGATTATCTTA
AAGCCTCTGCTCCTTCGCGAATTGTAACTGTATCAAGTATTGCTCATACACGTGGTGAAA
TAGATACAGCAGATTTCAATAGTGACAAAAATTATGATCCTAAGAAAGCTTATGAAATGT
CAAAATTATGCAACGTACTCTTCACAAGACAGCTTGCAAAAAAATTAGAAGGGACGGGAG
TTACTTCGAACTGCTGTCATCCTGGTATAGTTGATACCGAGTTAATGAGGCATATGGGCA
TAGTTAACTCATTTTTTGGAAAAATTTTTGTTTATCCCTTTTTGTGGATTTTTACTAAAA
AGGCAGAAGCTGGTGCTCAAACTGTTTTGTTTTGTGTACTTGAACCTGCGTTAAAAAATA
TTACTGGCGAATATTTCGCAGATTGTAAAAAGTCTGAAATGGCAGACCAAGCGAAAGATG
ATCAAATGGCAGAATGGTTGTGGCGCTTAAGTGAAAAATGGTGCCGATTAGCTTGA
>g7125.t12 Gene=g7125 Length=193
MRIPQKLVTQEGFEMQIGTNHLGHFLLTNLLLDYLKASAPSRIVTVSSIAHTRGEIDTAD
FNSDKNYDPKKAYEMSKLCNVLFTRQLAKKLEGTGVTSNCCHPGIVDTELMRHMGIVNSF
FGKIFVYPFLWIFTKKAEAGAQTVLFCVLEPALKNITGEYFADCKKSEMADQAKDDQMAE
WLWRLSEKWCRLA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g7125.t12 | Gene3D | G3DSA:3.40.50.720 | - | 1 | 192 | 0.0e+00 |
| 2 | g7125.t12 | PANTHER | PTHR24320 | RETINOL DEHYDROGENASE | 1 | 191 | 0.0e+00 |
| 3 | g7125.t12 | PANTHER | PTHR24320:SF142 | GH10714P-RELATED | 1 | 191 | 0.0e+00 |
| 6 | g7125.t12 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 35 | 51 | 1.3e-05 |
| 5 | g7125.t12 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 73 | 92 | 1.3e-05 |
| 4 | g7125.t12 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 94 | 111 | 1.3e-05 |
| 1 | g7125.t12 | Pfam | PF00106 | short chain dehydrogenase | 8 | 112 | 0.0e+00 |
| 7 | g7125.t12 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 9 | 167 | 0.0e+00 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
## [1] "No matching GO terms"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.
