General information for g1624.t13
Yuki Yoshida
6/2/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alcohol dehydrogenase class-3.
Parent gene
- The parent gene g1624 is located on chr_3: 12203453..12213992 (+ 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_3 | g1624 | g1624.t13 | TSS | g1624.t13 | 12202430 | 12202430 |
| chr_3 | g1624 | g1624.t13 | isoform | g1624.t13 | 12202457 | 12204026 |
| chr_3 | g1624 | g1624.t13 | exon | g1624.t13.exon1 | 12202457 | 12202594 |
| chr_3 | g1624 | g1624.t13 | exon | g1624.t13.exon2 | 12202645 | 12202741 |
| chr_3 | g1624 | g1624.t13 | exon | g1624.t13.exon3 | 12202893 | 12203050 |
| chr_3 | g1624 | g1624.t13 | cds | g1624.t13.CDS1 | 12202936 | 12203050 |
| chr_3 | g1624 | g1624.t13 | exon | g1624.t13.exon4 | 12203437 | 12204026 |
| chr_3 | g1624 | g1624.t13 | cds | g1624.t13.CDS2 | 12203437 | 12204026 |
| chr_3 | g1624 | g1624.t13 | TTS | g1624.t13 | 12204044 | 12204044 |
Sequences
>g1624.t13 Gene=g1624 Length=983
ATGTCTTTCGTTCAGACAGTTATTAAGTGTCGTGCTGCAATATCTTGGAAAGCTAATCAG
GCTTTTTCGATAGAAGAAATTGAAGTCGCACCGCCACAAAGTGGCGAAGTTCGTGTTAAA
ATTATTGCAACTGGAATTTGTTTGACAGATGCTTCTGCGTCGCGTGGAAAAATACTTGAT
GTGAAATTTCCAATAATTCTCGGTCATGAAGCAGCAGGAATAGTTGAATCCGTTGCAAAT
CAAGATTTAAATGCAAAGGAAAAGAAATTTTCCAATTTATGGGAACTTCAACATTTACTG
AATATTCAGTTTTGAAGGAAATTAATGTTGCAAAAATTAATCCGAAAGCTCCTTTAGAGA
AAGTTTGTCTTTTGGGTTGTGGTGTGCCAACAGGCTATGGTGGTTCAACGAAGACAGCAA
AAGTAAGAGAAGGATCGACAGCAGCTGTTTGGGGACTTGGAACAATTGGTCTTGCCTGTA
TACTTGGTTGTAAAAATGCTGGTGCTTCAAAAATCATTGGAATTGATAAAAATCCTATGA
AAGAACAGATTGCGAAAGAATTTGGCTGCACAGACTTTATAAATGCAGGAGATGTTTCGA
AATCAATAGAAGAATATTTGAATAAAAAATATGGCATGATTGATTACACTTTTGAGTGCG
TAGGAACAATTCCAACAATGAAACAAGCATTCAAAACTGCAGCACTCGGTTACGGTGTAT
GTGTTCTTGTTGGTGTAAGTCCACAAGATGAAGAAATTAATCTTTCACCAATTGACTTTC
TTCTTGGCCGTAAATTGACGGGAGAACTTTTTGGTTCATACAAAAGTGTAGATGATGTGC
CAAAATTGGTTGAAGAATATATGGAAGGAACAATACCACTAGAGAAATTCATAACTCATA
ATCTTTCATTCGATGAAATCAATGAGGGTTTTGAATTATTGCACAATGGCATATGCGTTC
GTTGTGTTTTAAATTACAAATAA
>g1624.t13 Gene=g1624 Length=234
MGTSTFTEYSVLKEINVAKINPKAPLEKVCLLGCGVPTGYGGSTKTAKVREGSTAAVWGL
GTIGLACILGCKNAGASKIIGIDKNPMKEQIAKEFGCTDFINAGDVSKSIEEYLNKKYGM
IDYTFECVGTIPTMKQAFKTAALGYGVCVLVGVSPQDEEINLSPIDFLLGRKLTGELFGS
YKSVDDVPKLVEEYMEGTIPLEKFITHNLSFDEINEGFELLHNGICVRCVLNYK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g1624.t13 | Gene3D | G3DSA:3.90.180.10 | - | 1 | 230 | 0 |
| 5 | g1624.t13 | Gene3D | G3DSA:3.40.50.720 | - | 39 | 176 | 0 |
| 2 | g1624.t13 | PANTHER | PTHR43880 | ALCOHOL DEHYDROGENASE | 1 | 231 | 0 |
| 1 | g1624.t13 | Pfam | PF00107 | Zinc-binding dehydrogenase | 63 | 189 | 0 |
| 3 | g1624.t13 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 25 | 197 | 0 |
| 4 | g1624.t13 | SUPERFAMILY | SSF50129 | GroES-like | 182 | 232 | 0 |
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