General information for g12721.t4
Yuki Yoshida
6/2/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Alcohol dehydrogenase 1.
Parent gene
- The parent gene g12721 is located on chr_1: 25447712..25449299 (- 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_1 | g12721 | g12721.t4 | TTS | g12721.t4 | 25447573 | 25447573 |
| chr_1 | g12721 | g12721.t4 | isoform | g12721.t4 | 25447712 | 25449299 |
| chr_1 | g12721 | g12721.t4 | exon | g12721.t4.exon1 | 25447712 | 25448301 |
| chr_1 | g12721 | g12721.t4 | cds | g12721.t4.CDS1 | 25448268 | 25448301 |
| chr_1 | g12721 | g12721.t4 | exon | g12721.t4.exon2 | 25448620 | 25448870 |
| chr_1 | g12721 | g12721.t4 | cds | g12721.t4.CDS2 | 25448620 | 25448870 |
| chr_1 | g12721 | g12721.t4 | exon | g12721.t4.exon3 | 25448952 | 25449107 |
| chr_1 | g12721 | g12721.t4 | cds | g12721.t4.CDS3 | 25448952 | 25449107 |
| chr_1 | g12721 | g12721.t4 | exon | g12721.t4.exon4 | 25449165 | 25449299 |
| chr_1 | g12721 | g12721.t4 | cds | g12721.t4.CDS4 | 25449165 | 25449299 |
| chr_1 | g12721 | g12721.t4 | TSS | g12721.t4 | 25449342 | 25449342 |
Sequences
>g12721.t4 Gene=g12721 Length=1132
ATGACTGAAGGAAAAACTATAACGTGTCGAGCTGCAGTTGTTTGGAAGGCAAATGAGCCA
TTTGTCATTGAACAAATTGAAGTTGATCCACCAAAAGCTGGTGAAGTGCGAGTTAAAATT
GTCTCAACTGGAATTTGCTTCTCTGATGTAAGTGCATCAACAGGAAAAATTTTGGGAGTT
CAATTTCCAATAATTCTCGGTCATGAAGCCTCTGCAATTGTTGAATCAATTGGAGAAGGC
GTAGAAAGTGTGGGTGTAGGAGATCATGTTTTGCCTTTATTTTTACCGCAATGTAACAGA
TGTCGCGTTTGTAAAGATAAAAATGCTAATAGCTGTTTAGAGTTTATGGGATCACAAGTC
AAAGGCGTAATGTCAGATGGTACATCTCGTTTTCGGTGTCGAGGAGAAACTTTGTATACT
TTTGTTGGATGTTCGACATTCACAGAATATTCAGTGATAAGTGAAATTAATTTGGCAAAA
ATCAACCCTGAAGCTCCAATGAAGGAAGCTGCTCTTATAAGTTGTGGTATTTCAACTGGT
GTGTTATGGAGCAGCAATAAATTCTGCGGGTGTTAAAGAAAATAGCACTTGTGCTGTATG
GGGATTGGGCACACTAGGCTTATCAACTATCATGGGATGTAAAAAAGCGGGTGCAAAGAC
TATTATCGGAATTGATATTATTCCAGAAAAATTCAAACTAGCAGCTGAAATGGGTTGCAC
AGATTTTGTAAATCCATCAGAATTGAGTGTACCTATTGAGCAATATTTAATGGAAAAATA
TGGTGGTGCTATTGAGTATACTTTTGAGTGTATTGGAAGAATTCAAACGATGAAGCAAGC
TTTTGATTGCTGTGCTATTGGAAATGGAGTTTGTGTTTTAATTGGTGTAGCAGGCTTAAC
TGATAACTTGAACATTTCTCCTGGACAATTTCTAGCTGGAAAAACACTCAAAGGGACGCT
TTATGGAGGCTATAAAAGTCGTGATGCAGTTCCCAAACTTGTTGATGAACTCATGAATGG
AAAACTGAAAGTTGACAAATTCATAACACATACTATGAAATTGGATGATATTAATGAGGG
CTTTGATTTATTAAAAGCCGGAAAAAGTATTCGCACAATTCTTAATTTATAA
>g12721.t4 Gene=g12721 Length=191
MTEGKTITCRAAVVWKANEPFVIEQIEVDPPKAGEVRVKIVSTGICFSDVSASTGKILGV
QFPIILGHEASAIVESIGEGVESVGVGDHVLPLFLPQCNRCRVCKDKNANSCLEFMGSQV
KGVMSDGTSRFRCRGETLYTFVGCSTFTEYSVISEINLAKINPEAPMKEAALISCGISTG
VLWSSNKFCGC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12721.t4 | Gene3D | G3DSA:3.90.180.10 | - | 1 | 187 | 0 |
| 2 | g12721.t4 | PANTHER | PTHR43880 | ALCOHOL DEHYDROGENASE | 4 | 181 | 0 |
| 1 | g12721.t4 | Pfam | PF08240 | Alcohol dehydrogenase GroES-like domain | 34 | 126 | 0 |
| 3 | g12721.t4 | SUPERFAMILY | SSF50129 | GroES-like | 2 | 181 | 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.
