General information for g3809.t4
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 g3809 is located on chr_3: 28064662..28065912 (+ 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 | g3809 | g3809.t4 | TSS | g3809.t4 | 28044968 | 28044968 |
| chr_3 | g3809 | g3809.t4 | isoform | g3809.t4 | 28044991 | 28046698 |
| chr_3 | g3809 | g3809.t4 | exon | g3809.t4.exon1 | 28044991 | 28045116 |
| chr_3 | g3809 | g3809.t4 | cds | g3809.t4.CDS1 | 28044991 | 28045116 |
| chr_3 | g3809 | g3809.t4 | exon | g3809.t4.exon2 | 28045173 | 28046698 |
| chr_3 | g3809 | g3809.t4 | cds | g3809.t4.CDS2 | 28045173 | 28046156 |
| chr_3 | g3809 | g3809.t4 | TTS | g3809.t4 | NA | NA |
Sequences
>g3809.t4 Gene=g3809 Length=1652
ATGGCAGAAGTAATAAAATGTCGTGCTGCTGTTTGCTGGGCAAAGAACGAAATTAAAATT
GAAGAAATTGAGGTTGCTCCGCCTAAGAAAAATGAAGTTCGCATTAAAGTTGTTGCTTCT
GGATTGTGTCATTCTGATATTTCTGGAATGAAGGGAAAATTTAATGATCAATTTCCAATA
ATATTGGGCCACGAAGGGTCTGGTATCGTTGAATCAATCGGTGAAGGTGTTGCAAATGTA
AAACCAGGCGATCATGTATTATTTGTCCTATGCCCGCAATGTGATGAATGTCGAGTTTGT
AAAAAAGGAAAAAATAATATTTGTTTTTCAAAAACATTTGGACGAAAAGATATGAGTGAT
GGAACTACAAGGTTTTCTTGTCGTGGTCAAGAAATCCATCATTTTATGAGAGCAGCTACT
TTCTCTCAATATACTGTAGTATCTGTTGATAATTGTGTGAAAATCAATGAAAATGCACCA
CTTGAAAAGGTTTGTTTGTTAGCTTGTGGTGTGCCCACTGGTTATGGAGCAGTCATAAAT
TCAGCAAAGGTCGAAGAAGGAAGCACATGTGCAATTTTTGGACTTGGTGCTATTGGACTT
TCAGCTGTTATGGGTTGTAGAGATTCTAAAGCAAGTCGAATTGTCGCAATTGATATAAAT
TCAGATAAATTCGAACTGGCTAAAGAATATGGTGCAACTGATTGTATCAATCCAAAAGAT
TTAGACACGCCAATTGAAAAATACTTGCAGAAAGAGTTCGATGGTGGTTTCGATTACACT
TTTGAATGTATTGGTCTTATTGAGACAATGACACAAGCTTGGGAATCAACATTTTTGGGT
CATGGTGAATGCATTATTATTGGAGTTGATGCCAAAGAAAAAATGCTTTCAATTTCTCCT
TTTGCCACTCTTTTTGGTAAAAAAATTCGAGGATCTGCCTTTGGCGGTTATAAAAGTGAA
GATTTACCAAAATTGGTTGAGAAATACATCAAAGGCGAATTGAATTTTGATGAAATGATT
ACACATAATTTGACATTGAATGATATCAAGAAAGCAATTGAATTACTTGAAAGTGGCAAA
TCTATAAGAAGTGTTTTGAAAATGAACTAAGAAAAACATATTTCAAGTATTCCCATAAAA
GTTTATCCAAGTAAAAGTTTCATAAAATCAACTTGAGCGGTTTTTATTTCAACAAATTTA
AAAAGATTTTCTCTCATTTTTTTCTGCGTTCTATGAATAAAAAAGAAAAATTTTCTCTAA
TTGAAACAAAAATAAGACAGAAGAATTTTTTCCCTCTCGGATAAAAACAGAGAATGAATT
TTTTATATAAAAACTGTTATACATTTCATCAATTGTTCGCTTCTTTTTTGATGATTGTTG
AATGTTTTTTTTATTATTTGTAATTCTTTAGAAAGTCATTTCTATTCGAAAATGTTTCTA
TGTAAAATTTAAAATTAAGAAAATTTTAATAAAAATTTTTATTTGATTATCAAATAAAAA
TTATCAACTTTTGCAAAAAAATAAGTAAAATTCGCAATTTTATTTCTAAAAATACATATA
ATAATGTTTCTTTTGTATCTTCTCGATTTTCTCTCTCGACAAAATCCCAAACAACAACTT
ATTAACATTTTTTTCCTAATGTTCATTTCAGT
>g3809.t4 Gene=g3809 Length=369
MAEVIKCRAAVCWAKNEIKIEEIEVAPPKKNEVRIKVVASGLCHSDISGMKGKFNDQFPI
ILGHEGSGIVESIGEGVANVKPGDHVLFVLCPQCDECRVCKKGKNNICFSKTFGRKDMSD
GTTRFSCRGQEIHHFMRAATFSQYTVVSVDNCVKINENAPLEKVCLLACGVPTGYGAVIN
SAKVEEGSTCAIFGLGAIGLSAVMGCRDSKASRIVAIDINSDKFELAKEYGATDCINPKD
LDTPIEKYLQKEFDGGFDYTFECIGLIETMTQAWESTFLGHGECIIIGVDAKEKMLSISP
FATLFGKKIRGSAFGGYKSEDLPKLVEKYIKGELNFDEMITHNLTLNDIKKAIELLESGK
SIRSVLKMN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g3809.t4 | Gene3D | G3DSA:3.90.180.10 | - | 16 | 365 | 2.9E-130 |
| 8 | g3809.t4 | Gene3D | G3DSA:3.40.50.720 | - | 174 | 312 | 2.9E-130 |
| 3 | g3809.t4 | PANTHER | PTHR43880 | ALCOHOL DEHYDROGENASE | 3 | 366 | 1.8E-144 |
| 2 | g3809.t4 | Pfam | PF08240 | Alcohol dehydrogenase GroES-like domain | 31 | 155 | 5.8E-25 |
| 1 | g3809.t4 | Pfam | PF00107 | Zinc-binding dehydrogenase | 197 | 327 | 4.3E-21 |
| 7 | g3809.t4 | ProSitePatterns | PS00059 | Zinc-containing alcohol dehydrogenases signature. | 63 | 77 | - |
| 5 | g3809.t4 | SUPERFAMILY | SSF50129 | GroES-like | 3 | 183 | 8.37E-64 |
| 4 | g3809.t4 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 160 | 332 | 8.06E-42 |
| 6 | g3809.t4 | SUPERFAMILY | SSF50129 | GroES-like | 318 | 366 | 1.88E-9 |
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