Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Alcohol dehydrogenase class-3.

Parent gene

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.t7 TSS g1624.t7 12202430 12202430
chr_3 g1624 g1624.t7 isoform g1624.t7 12202457 12204026
chr_3 g1624 g1624.t7 exon g1624.t7.exon1 12202457 12202568
chr_3 g1624 g1624.t7 exon g1624.t7.exon2 12202622 12203038
chr_3 g1624 g1624.t7 exon g1624.t7.exon3 12203430 12204026
chr_3 g1624 g1624.t7 cds g1624.t7.CDS1 12203580 12204026
chr_3 g1624 g1624.t7 TTS g1624.t7 12204044 12204044

Sequences

>g1624.t7 Gene=g1624 Length=1126
ATGTCTTTCGTTCAGACAGTTATTAAGTGTCGTGCTGCAATATCTTGGAAAGCTAATCAG
GCTTTTTCGATAGAAGAAATTGAAGTCGCACCGCCACAAAGTGGCGAAGTTCATAAATAT
TGACATAGATTTTAGTGTTTGACAGATGCTTCTGCGTCGCGTGGAAAAATACTTGATGTG
AAATTTCCAATAATTCTCGGTCATGAAGCAGCAGGAATAGTTGAATCCGTTGGTGAAGGA
GTAAAAAGTGTAAAACCAGGCGATCATGTTATAACACTCTTTCTACCACAATGCAAAAAA
TGTGAGGTTTGCAAGCGCGAAGACGCAAATACTTGTATGGAATTTTTCCATGGAAGTCAA
GCTCGTGGTGTGATGGATGATGGCAAATCAAGATTTAAATGCAAAGGAAAAGAAATTTTC
CAATTTATGGGAACTTCAACATTTACTGAATATTCAGTTTTGAAGGAAATTAATGTTGCA
AAAATTAATCCGAAAGCTCCTTTAGAGAAAGTTTGTCTTTTGGGTTGTGAATTTAGGCTA
TGGTGGTTCAACGAAGACAGCAAAAGTAAGAGAAGGATCGACAGCAGCTGTTTGGGGACT
TGGAACAATTGGTCTTGCCTGTATACTTGGTTGTAAAAATGCTGGTGCTTCAAAAATCAT
TGGAATTGATAAAAATCCTATGAAAGAACAGATTGCGAAAGAATTTGGCTGCACAGACTT
TATAAATGCAGGAGATGTTTCGAAATCAATAGAAGAATATTTGAATAAAAAATATGGCAT
GATTGATTACACTTTTGAGTGCGTAGGAACAATTCCAACAATGAAACAAGCATTCAAAAC
TGCAGCACTCGGTTACGGTGTATGTGTTCTTGTTGGTGTAAGTCCACAAGATGAAGAAAT
TAATCTTTCACCAATTGACTTTCTTCTTGGCCGTAAATTGACGGGAGAACTTTTTGGTTC
ATACAAAAGTGTAGATGATGTGCCAAAATTGGTTGAAGAATATATGGAAGGAACAATACC
ACTAGAGAAATTCATAACTCATAATCTTTCATTCGATGAAATCAATGAGGGTTTTGAATT
ATTGCACAATGGCATATGCGTTCGTTGTGTTTTAAATTACAAATAA

>g1624.t7 Gene=g1624 Length=148
MKEQIAKEFGCTDFINAGDVSKSIEEYLNKKYGMIDYTFECVGTIPTMKQAFKTAALGYG
VCVLVGVSPQDEEINLSPIDFLLGRKLTGELFGSYKSVDDVPKLVEEYMEGTIPLEKFIT
HNLSFDEINEGFELLHNGICVRCVLNYK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g1624.t7 Gene3D G3DSA:3.40.50.720 - 1 84 0
6 g1624.t7 Gene3D G3DSA:3.90.180.10 - 85 147 0
2 g1624.t7 PANTHER PTHR43880 ALCOHOL DEHYDROGENASE 2 145 0
1 g1624.t7 Pfam PF00107 Zinc-binding dehydrogenase 3 104 0
3 g1624.t7 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 2 111 0
4 g1624.t7 SUPERFAMILY SSF50129 GroES-like 96 146 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