General information for g1624.t28
Yuki Yoshida
22/1/2022
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.t28 | TSS | g1624.t28 | 12202430 | 12202430 |
| chr_3 | g1624 | g1624.t28 | isoform | g1624.t28 | 12202457 | 12204684 |
| chr_3 | g1624 | g1624.t28 | exon | g1624.t28.exon1 | 12202457 | 12202594 |
| chr_3 | g1624 | g1624.t28 | cds | g1624.t28.CDS1 | 12202457 | 12202594 |
| chr_3 | g1624 | g1624.t28 | exon | g1624.t28.exon2 | 12202645 | 12203050 |
| chr_3 | g1624 | g1624.t28 | cds | g1624.t28.CDS2 | 12202645 | 12203050 |
| chr_3 | g1624 | g1624.t28 | exon | g1624.t28.exon3 | 12203437 | 12203669 |
| chr_3 | g1624 | g1624.t28 | cds | g1624.t28.CDS3 | 12203437 | 12203669 |
| chr_3 | g1624 | g1624.t28 | exon | g1624.t28.exon4 | 12204447 | 12204684 |
| chr_3 | g1624 | g1624.t28 | cds | g1624.t28.CDS4 | 12204447 | 12204500 |
| chr_3 | g1624 | g1624.t28 | TTS | g1624.t28 | NA | NA |
Sequences
>g1624.t28 Gene=g1624 Length=1015
ATGTCTTTCGTTCAGACAGTTATTAAGTGTCGTGCTGCAATATCTTGGAAAGCTAATCAG
GCTTTTTCGATAGAAGAAATTGAAGTCGCACCGCCACAAAGTGGCGAAGTTCGTGTTAAA
ATTATTGCAACTGGAATTTGTTTGACAGATGCTTCTGCGTCGCGTGGAAAAATACTTGAT
GTGAAATTTCCAATAATTCTCGGTCATGAAGCAGCAGGAATAGTTGAATCCGTTGGTGAA
GGAGTAAAAAGTGTAAAACCAGGCGATCATGTTATAACACTCTTTCTACCACAATGCAAA
AAATGTGAGGTTTGCAAGCGCGAAGACGCAAATACTTGTATGGAATTTTTCCATGGAAGT
CAAGCTCGTGGTGTGATGGATGATGGCAAATCAAGATTTAAATGCAAAGGAAAAGAAATT
TTCCAATTTATGGGAACTTCAACATTTACTGAATATTCAGTTTTGAAGGAAATTAATGTT
GCAAAAATTAATCCGAAAGCTCCTTTAGAGAAAGTTTGTCTTTTGGGTTGTGGTGTGCCA
ACAGGCTATGGTGGTTCAACGAAGACAGCAAAAGTAAGAGAAGGATCGACAGCAGCTGTT
TGGGGACTTGGAACAATTGGTCTTGCCTGTATACTTGGTTGTAAAAATGCTGGTGCTTCA
AAAATCATTGGAATTGATAAAAATCCTATGAAAGAACAGATTGCGAAAGAATTTGGCTGC
ACAGACTTTATAAATGCAGGAGATGTTTCGAAATCAATAGAAGAATATTTGAATAAAATA
TGGTCGTTGACTAAAGTCAATCTAAAAATTTGTAATTTAAAAGTGAACTGAAAAATTTCA
AATTTATGAAAACAATTTTTTAAATCAATTTAAAGTGATAGAACACACATCAAGAAAACT
ATGATAAATATTATTTTAAAAAAATTTTCCTGTAACAAAAACAAGGTATAAACAAACTTT
CTTAATTTTTTTTGAATATTTTTTATTAAAGAAGAAAAACAAAGGGTGATAAAAT
>g1624.t28 Gene=g1624 Length=276
MSFVQTVIKCRAAISWKANQAFSIEEIEVAPPQSGEVRVKIIATGICLTDASASRGKILD
VKFPIILGHEAAGIVESVGEGVKSVKPGDHVITLFLPQCKKCEVCKREDANTCMEFFHGS
QARGVMDDGKSRFKCKGKEIFQFMGTSTFTEYSVLKEINVAKINPKAPLEKVCLLGCGVP
TGYGGSTKTAKVREGSTAAVWGLGTIGLACILGCKNAGASKIIGIDKNPMKEQIAKEFGC
TDFINAGDVSKSIEEYLNKIWSLTKVNLKICNLKVN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g1624.t28 | Gene3D | G3DSA:3.90.180.10 | - | 4 | 186 | 2.2E-54 |
| 7 | g1624.t28 | Gene3D | G3DSA:3.40.50.720 | - | 187 | 270 | 7.9E-25 |
| 3 | g1624.t28 | PANTHER | PTHR43880 | ALCOHOL DEHYDROGENASE | 6 | 259 | 4.6E-105 |
| 2 | g1624.t28 | Pfam | PF08240 | Alcohol dehydrogenase GroES-like domain | 35 | 161 | 1.0E-24 |
| 1 | g1624.t28 | Pfam | PF00107 | Zinc-binding dehydrogenase | 206 | 256 | 7.7E-8 |
| 6 | g1624.t28 | ProSitePatterns | PS00059 | Zinc-containing alcohol dehydrogenases signature. | 68 | 82 | - |
| 5 | g1624.t28 | SUPERFAMILY | SSF50129 | GroES-like | 6 | 188 | 1.35E-68 |
| 4 | g1624.t28 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 168 | 260 | 2.91E-23 |
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