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_3 g1624 g1624.t8 TSS g1624.t8 12202430 12202430
chr_3 g1624 g1624.t8 isoform g1624.t8 12202457 12204026
chr_3 g1624 g1624.t8 exon g1624.t8.exon1 12202457 12202594
chr_3 g1624 g1624.t8 cds g1624.t8.CDS1 12202457 12202594
chr_3 g1624 g1624.t8 exon g1624.t8.exon2 12202645 12202741
chr_3 g1624 g1624.t8 cds g1624.t8.CDS2 12202645 12202741
chr_3 g1624 g1624.t8 exon g1624.t8.exon3 12202850 12203050
chr_3 g1624 g1624.t8 cds g1624.t8.CDS3 12202850 12203050
chr_3 g1624 g1624.t8 exon g1624.t8.exon4 12203437 12204026
chr_3 g1624 g1624.t8 cds g1624.t8.CDS4 12203437 12204026
chr_3 g1624 g1624.t8 TTS g1624.t8 12204044 12204044

Sequences

>g1624.t8 Gene=g1624 Length=1026
ATGTCTTTCGTTCAGACAGTTATTAAGTGTCGTGCTGCAATATCTTGGAAAGCTAATCAG
GCTTTTTCGATAGAAGAAATTGAAGTCGCACCGCCACAAAGTGGCGAAGTTCGTGTTAAA
ATTATTGCAACTGGAATTTGTTTGACAGATGCTTCTGCGTCGCGTGGAAAAATACTTGAT
GTGAAATTTCCAATAATTCTCGGTCATGAAGCAGCAGGAATAGTTGAATCCGTTGAATTT
TTCCATGGAAGTCAAGCTCGTGGTGTGATGGATGATGGCAAATCAAGATTTAAATGCAAA
GGAAAAGAAATTTTCCAATTTATGGGAACTTCAACATTTACTGAATATTCAGTTTTGAAG
GAAATTAATGTTGCAAAAATTAATCCGAAAGCTCCTTTAGAGAAAGTTTGTCTTTTGGGT
TGTGGTGTGCCAACAGGCTATGGTGGTTCAACGAAGACAGCAAAAGTAAGAGAAGGATCG
ACAGCAGCTGTTTGGGGACTTGGAACAATTGGTCTTGCCTGTATACTTGGTTGTAAAAAT
GCTGGTGCTTCAAAAATCATTGGAATTGATAAAAATCCTATGAAAGAACAGATTGCGAAA
GAATTTGGCTGCACAGACTTTATAAATGCAGGAGATGTTTCGAAATCAATAGAAGAATAT
TTGAATAAAAAATATGGCATGATTGATTACACTTTTGAGTGCGTAGGAACAATTCCAACA
ATGAAACAAGCATTCAAAACTGCAGCACTCGGTTACGGTGTATGTGTTCTTGTTGGTGTA
AGTCCACAAGATGAAGAAATTAATCTTTCACCAATTGACTTTCTTCTTGGCCGTAAATTG
ACGGGAGAACTTTTTGGTTCATACAAAAGTGTAGATGATGTGCCAAAATTGGTTGAAGAA
TATATGGAAGGAACAATACCACTAGAGAAATTCATAACTCATAATCTTTCATTCGATGAA
ATCAATGAGGGTTTTGAATTATTGCACAATGGCATATGCGTTCGTTGTGTTTTAAATTAC
AAATAA

>g1624.t8 Gene=g1624 Length=341
MSFVQTVIKCRAAISWKANQAFSIEEIEVAPPQSGEVRVKIIATGICLTDASASRGKILD
VKFPIILGHEAAGIVESVEFFHGSQARGVMDDGKSRFKCKGKEIFQFMGTSTFTEYSVLK
EINVAKINPKAPLEKVCLLGCGVPTGYGGSTKTAKVREGSTAAVWGLGTIGLACILGCKN
AGASKIIGIDKNPMKEQIAKEFGCTDFINAGDVSKSIEEYLNKKYGMIDYTFECVGTIPT
MKQAFKTAALGYGVCVLVGVSPQDEEINLSPIDFLLGRKLTGELFGSYKSVDDVPKLVEE
YMEGTIPLEKFITHNLSFDEINEGFELLHNGICVRCVLNYK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g1624.t8 Gene3D G3DSA:3.90.180.10 - 3 78 0
10 g1624.t8 Gene3D G3DSA:3.90.180.10 - 84 337 0
8 g1624.t8 Gene3D G3DSA:3.40.50.720 - 146 283 0
4 g1624.t8 PANTHER PTHR43880 ALCOHOL DEHYDROGENASE 6 78 0
3 g1624.t8 PANTHER PTHR43880 ALCOHOL DEHYDROGENASE 84 338 0
2 g1624.t8 Pfam PF08240 Alcohol dehydrogenase GroES-like domain 35 79 0
1 g1624.t8 Pfam PF00107 Zinc-binding dehydrogenase 170 296 0
7 g1624.t8 SUPERFAMILY SSF50129 GroES-like 6 152 0
5 g1624.t8 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 132 304 0
6 g1624.t8 SUPERFAMILY SSF50129 GroES-like 289 339 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