Gene loci information

Transcript annotation

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

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_1 g12721 g12721.t5 TTS g12721.t5 25447573 25447573
chr_1 g12721 g12721.t5 isoform g12721.t5 25447712 25449299
chr_1 g12721 g12721.t5 exon g12721.t5.exon1 25447712 25448301
chr_1 g12721 g12721.t5 cds g12721.t5.CDS1 25447712 25448301
chr_1 g12721 g12721.t5 exon g12721.t5.exon2 25448624 25449299
chr_1 g12721 g12721.t5 cds g12721.t5.CDS2 25448624 25448816
chr_1 g12721 g12721.t5 TSS g12721.t5 25449342 25449342

Sequences

>g12721.t5 Gene=g12721 Length=1266
ATGACTGAAGGAAAAACTATAACGTGTCGAGCTGCAGTTGTTTGGAAGGCAAATGAGCCA
TTTGTCATTGAACAAATTGAAGTTGATCCACCAAAAGCTGGTGAAGTGCGAGTTAAAATT
GTCTCAACTGGAATTGTAAGAGTGAAATTAATTTTTAACAATTTTGAAAATTGATTTTAT
TTTATTTATCAGTGCTTCTCTGATGTAAGTGCATCAACAGGAAAAATTTTGGGAGTTCAA
TTTCCAATAATTCTCGGTCATGAAGCCTCTGCAATTGTTGAATCAATTGGAGAAGGCGTA
GAAAGTGTGGGTGTAGGAGATCATGTTTTGCCTTTATTTTTACCGCAAGTATGTGTGCTT
TAAAAAGTTTTTACTTTTAGTCATTATTTTAATATAAATCAATCTACTTTATTTTTATAT
TATAAACAGTGTAACAGATGTCGCGTTTGTAAAGATAAAAATGCTAATAGCTGTTTAGAG
TTTATGGGATCACAAGTCAAAGGCGTAATGTCAGATGGTACATCTCGTTTTCGGTGTCGA
GGAGAAACTTTGTATACTTTTGTTGGATGTTCGACATTCACAGAATATTCAGTGATAAGT
GAAATTAATTTGGCAAAAATCAACCCTGAAGCTCCAATGAAGGAAGCTGCTCTTATAAGT
TGTGGTATTTCAACTGGTTATGGAGCAGCAATAAATTCTGCGGGTGTTAAAGAAAATAGC
ACTTGTGCTGTATGGGGATTGGGCACACTAGGCTTATCAACTATCATGGGATGTAAAAAA
GCGGGTGCAAAGACTATTATCGGAATTGATATTATTCCAGAAAAATTCAAACTAGCAGCT
GAAATGGGTTGCACAGATTTTGTAAATCCATCAGAATTGAGTGTACCTATTGAGCAATAT
TTAATGGAAAAATATGGTGGTGCTATTGAGTATACTTTTGAGTGTATTGGAAGAATTCAA
ACGATGAAGCAAGCTTTTGATTGCTGTGCTATTGGAAATGGAGTTTGTGTTTTAATTGGT
GTAGCAGGCTTAACTGATAACTTGAACATTTCTCCTGGACAATTTCTAGCTGGAAAAACA
CTCAAAGGGACGCTTTATGGAGGCTATAAAAGTCGTGATGCAGTTCCCAAACTTGTTGAT
GAACTCATGAATGGAAAACTGAAAGTTGACAAATTCATAACACATACTATGAAATTGGAT
GATATTAATGAGGGCTTTGATTTATTAAAAGCCGGAAAAAGTATTCGCACAATTCTTAAT
TTATAA

>g12721.t5 Gene=g12721 Length=260
MGSQVKGVMSDGTSRFRCRGETLYTFVGCSTFTEYSVISEINLAKINPEAPMKEAALISC
GISTGYGAAINSAGVKENSTCAVWGLGTLGLSTIMGCKKAGAKTIIGIDIIPEKFKLAAE
MGCTDFVNPSELSVPIEQYLMEKYGGAIEYTFECIGRIQTMKQAFDCCAIGNGVCVLIGV
AGLTDNLNISPGQFLAGKTLKGTLYGGYKSRDAVPKLVDELMNGKLKVDKFITHTMKLDD
INEGFDLLKAGKSIRTILNL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g12721.t5 Gene3D G3DSA:3.40.50.720 - 72 202 0
2 g12721.t5 PANTHER PTHR43880 ALCOHOL DEHYDROGENASE 4 258 0
1 g12721.t5 Pfam PF00107 Zinc-binding dehydrogenase 89 219 0
5 g12721.t5 SUPERFAMILY SSF50129 GroES-like 4 69 0
3 g12721.t5 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 51 225 0
4 g12721.t5 SUPERFAMILY SSF50129 GroES-like 210 258 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