General information for g6797.t2
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 g6797 is located on chr_2: 18776701..18777937 (+ 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 | g6797 | g6797.t2 | isoform | g6797.t2 | 18776701 | 18777937 |
| chr_2 | g6797 | g6797.t2 | exon | g6797.t2.exon1 | 18776701 | 18776824 |
| chr_2 | g6797 | g6797.t2 | exon | g6797.t2.exon2 | 18776897 | 18777160 |
| chr_2 | g6797 | g6797.t2 | cds | g6797.t2.CDS1 | 18777111 | 18777160 |
| chr_2 | g6797 | g6797.t2 | exon | g6797.t2.exon3 | 18777223 | 18777584 |
| chr_2 | g6797 | g6797.t2 | cds | g6797.t2.CDS2 | 18777223 | 18777584 |
| chr_2 | g6797 | g6797.t2 | exon | g6797.t2.exon4 | 18777639 | 18777937 |
| chr_2 | g6797 | g6797.t2 | cds | g6797.t2.CDS3 | 18777639 | 18777937 |
| chr_2 | g6797 | g6797.t2 | TTS | g6797.t2 | 18778023 | 18778023 |
| chr_2 | g6797 | g6797.t2 | TSS | g6797.t2 | NA | NA |
Sequences
>g6797.t2 Gene=g6797 Length=1049
ATGAAAAATTACTGTAATTGTTGGTTAAATTTATTTCTTCTATTCATTGGAATATTTCTT
TTTATTCTTAAGTAAATGTGTTTAAAATTTTGTAAAATACTTAACTTTAAAGGATTATAT
ATTTAAAATTGTGTAGAGGAATAATATTTTCAAAAACAACATTAATTCATAATAAAGTTG
TGATTATCACTGGTGCTAATACAGGCTTAGGGAAAGTAACAGCAATTGATTTAGCAAAAC
GTGGAGGAAAAATTTATATTGCCTGCCGTGATGTTAAAAGAAGTGAAGAAGCGTTGAAAG
ATATCAAGAGAGAAAGTGGAAGTGACAATATTCATTTTATGCAACTTGATTTAAGTTCGA
TAGAATCAATAAGAGAATTTTCGCAAAAATTTCATGACAAAGAAGAAAAGTTACACATTC
TCATCAACAATGCAGGTTTAATAGGAGATCAGAATCTTAAAACTAAAGATGGCTTTGAAA
TGACAATGGGTGTCAACCATCTTGGACATTTTCTCTTAACTCATTTACTTCTTGATCTTC
TTAAAGCATCCGCACCAAGTCGAATAATTAATGTTTCATCATCAGCTTACTTTTTCTCTA
AAATTGAACACGACGATTTTGATGAAAATAAAAAATTTTCATCGAGTTTCATAATTTATG
CAAAAAGCAAATTAGCAAATATTTTATTTACACGAAAATTAGCCAAAATACTAAAAGAAA
AAATGGTAACCGTCAATTGTTGTCATCCAGGTGTAATACCAACAAAAATTACAAGAAATA
TATCAGCTGCTGAATTTATGTATAATATAATTCTAAAGCCATTTCTAAAAACACCAGTTG
AAGGTGCACAATCACAAATTCGATTAGCAGTTGATCCAGATTTGGAAGATGTAACTGGAA
AATACTTTGAAAATTGTAAAGAAGTTAGTACATGGAAACATGCAAATGATGAAAATGCTG
CAGATTGGTTATATGCAAAAAGTTGTAAATTGCTTTGTAACAAGTTATCTGATAAAGAAA
TTGAAAATTTTGAGATTAAATTTAATTAA
>g6797.t2 Gene=g6797 Length=236
MQLDLSSIESIREFSQKFHDKEEKLHILINNAGLIGDQNLKTKDGFEMTMGVNHLGHFLL
THLLLDLLKASAPSRIINVSSSAYFFSKIEHDDFDENKKFSSSFIIYAKSKLANILFTRK
LAKILKEKMVTVNCCHPGVIPTKITRNISAAEFMYNIILKPFLKTPVEGAQSQIRLAVDP
DLEDVTGKYFENCKEVSTWKHANDENAADWLYAKSCKLLCNKLSDKEIENFEIKFN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g6797.t2 | Gene3D | G3DSA:3.40.50.720 | - | 1 | 223 | 0e+00 |
| 2 | g6797.t2 | PANTHER | PTHR24320 | RETINOL DEHYDROGENASE | 2 | 220 | 0e+00 |
| 3 | g6797.t2 | PANTHER | PTHR24320:SF142 | GH10714P-RELATED | 2 | 220 | 0e+00 |
| 6 | g6797.t2 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 23 | 34 | 5e-07 |
| 10 | g6797.t2 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 23 | 34 | 0e+00 |
| 8 | g6797.t2 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 68 | 84 | 0e+00 |
| 4 | g6797.t2 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 74 | 82 | 5e-07 |
| 5 | g6797.t2 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 107 | 126 | 5e-07 |
| 9 | g6797.t2 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 107 | 126 | 0e+00 |
| 7 | g6797.t2 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 128 | 145 | 0e+00 |
| 1 | g6797.t2 | Pfam | PF00106 | short chain dehydrogenase | 2 | 150 | 0e+00 |
| 11 | g6797.t2 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 2 | 198 | 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. There were no conditions that were differentially expressed