General information for g1624.t29
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alcohol dehydrogenase class-3 chain L.
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.t29 | TSS | g1624.t29 | 12202430 | 12202430 |
| chr_3 | g1624 | g1624.t29 | isoform | g1624.t29 | 12202457 | 12204684 |
| chr_3 | g1624 | g1624.t29 | exon | g1624.t29.exon1 | 12202457 | 12202594 |
| chr_3 | g1624 | g1624.t29 | cds | g1624.t29.CDS1 | 12202457 | 12202594 |
| chr_3 | g1624 | g1624.t29 | exon | g1624.t29.exon2 | 12202645 | 12203050 |
| chr_3 | g1624 | g1624.t29 | cds | g1624.t29.CDS2 | 12202645 | 12203050 |
| chr_3 | g1624 | g1624.t29 | exon | g1624.t29.exon3 | 12203437 | 12204017 |
| chr_3 | g1624 | g1624.t29 | cds | g1624.t29.CDS3 | 12203437 | 12204017 |
| chr_3 | g1624 | g1624.t29 | exon | g1624.t29.exon4 | 12204493 | 12204684 |
| chr_3 | g1624 | g1624.t29 | cds | g1624.t29.CDS4 | 12204493 | 12204495 |
| chr_3 | g1624 | g1624.t29 | TTS | g1624.t29 | NA | NA |
Sequences
>g1624.t29 Gene=g1624 Length=1317
ATGTCTTTCGTTCAGACAGTTATTAAGTGTCGTGCTGCAATATCTTGGAAAGCTAATCAG
GCTTTTTCGATAGAAGAAATTGAAGTCGCACCGCCACAAAGTGGCGAAGTTCGTGTTAAA
ATTATTGCAACTGGAATTTGTTTGACAGATGCTTCTGCGTCGCGTGGAAAAATACTTGAT
GTGAAATTTCCAATAATTCTCGGTCATGAAGCAGCAGGAATAGTTGAATCCGTTGGTGAA
GGAGTAAAAAGTGTAAAACCAGGCGATCATGTTATAACACTCTTTCTACCACAATGCAAA
AAATGTGAGGTTTGCAAGCGCGAAGACGCAAATACTTGTATGGAATTTTTCCATGGAAGT
CAAGCTCGTGGTGTGATGGATGATGGCAAATCAAGATTTAAATGCAAAGGAAAAGAAATT
TTCCAATTTATGGGAACTTCAACATTTACTGAATATTCAGTTTTGAAGGAAATTAATGTT
GCAAAAATTAATCCGAAAGCTCCTTTAGAGAAAGTTTGTCTTTTGGGTTGTGGTGTGCCA
ACAGGCTATGGTGGTTCAACGAAGACAGCAAAAGTAAGAGAAGGATCGACAGCAGCTGTT
TGGGGACTTGGAACAATTGGTCTTGCCTGTATACTTGGTTGTAAAAATGCTGGTGCTTCA
AAAATCATTGGAATTGATAAAAATCCTATGAAAGAACAGATTGCGAAAGAATTTGGCTGC
ACAGACTTTATAAATGCAGGAGATGTTTCGAAATCAATAGAAGAATATTTGAATAAAAAA
TATGGCATGATTGATTACACTTTTGAGTGCGTAGGAACAATTCCAACAATGAAACAAGCA
TTCAAAACTGCAGCACTCGGTTACGGTGTATGTGTTCTTGTTGGTGTAAGTCCACAAGAT
GAAGAAATTAATCTTTCACCAATTGACTTTCTTCTTGGCCGTAAATTGACGGGAGAACTT
TTTGGTTCATACAAAAGTGTAGATGATGTGCCAAAATTGGTTGAAGAATATATGGAAGGA
ACAATACCACTAGAGAAATTCATAACTCATAATCTTTCATTCGATGAAATCAATGAGGGT
TTTGAATTATTGCACAATGGCATATGCGTTCGTTGTGTTTTAAATTGAACTGAAAAATTT
CAAATTTATGAAAACAATTTTTTAAATCAATTTAAAGTGATAGAACACACATCAAGAAAA
CTATGATAAATATTATTTTAAAAAAATTTTCCTGTAACAAAAACAAGGTATAAACAAACT
TTCTTAATTTTTTTTGAATATTTTTTATTAAAGAAGAAAAACAAAGGGTGATAAAAT
>g1624.t29 Gene=g1624 Length=375
MSFVQTVIKCRAAISWKANQAFSIEEIEVAPPQSGEVRVKIIATGICLTDASASRGKILD
VKFPIILGHEAAGIVESVGEGVKSVKPGDHVITLFLPQCKKCEVCKREDANTCMEFFHGS
QARGVMDDGKSRFKCKGKEIFQFMGTSTFTEYSVLKEINVAKINPKAPLEKVCLLGCGVP
TGYGGSTKTAKVREGSTAAVWGLGTIGLACILGCKNAGASKIIGIDKNPMKEQIAKEFGC
TDFINAGDVSKSIEEYLNKKYGMIDYTFECVGTIPTMKQAFKTAALGYGVCVLVGVSPQD
EEINLSPIDFLLGRKLTGELFGSYKSVDDVPKLVEEYMEGTIPLEKFITHNLSFDEINEG
FELLHNGICVRCVLN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g1624.t29 | Gene3D | G3DSA:3.90.180.10 | - | 18 | 373 | 7.5E-126 |
| 8 | g1624.t29 | Gene3D | G3DSA:3.40.50.720 | - | 182 | 319 | 7.5E-126 |
| 3 | g1624.t29 | PANTHER | PTHR43880 | ALCOHOL DEHYDROGENASE | 6 | 374 | 2.7E-145 |
| 2 | g1624.t29 | Pfam | PF08240 | Alcohol dehydrogenase GroES-like domain | 35 | 161 | 2.0E-24 |
| 1 | g1624.t29 | Pfam | PF00107 | Zinc-binding dehydrogenase | 206 | 332 | 3.9E-19 |
| 7 | g1624.t29 | ProSitePatterns | PS00059 | Zinc-containing alcohol dehydrogenases signature. | 68 | 82 | - |
| 5 | g1624.t29 | SUPERFAMILY | SSF50129 | GroES-like | 6 | 188 | 2.89E-68 |
| 4 | g1624.t29 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 168 | 340 | 4.35E-38 |
| 6 | g1624.t29 | SUPERFAMILY | SSF50129 | GroES-like | 325 | 374 | 3.92E-11 |
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 transcript has been annotated with K00121 (S-(hydroxymethyl)glutathione dehydrogenase / alcohol dehydrogenase)
Pathway
- This transcript belongs to the following pathways
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.
