Gene loci information

Transcript annotation

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

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.t15 TSS g1624.t15 12202430 12202430
chr_3 g1624 g1624.t15 isoform g1624.t15 12202457 12204026
chr_3 g1624 g1624.t15 exon g1624.t15.exon1 12202457 12202594
chr_3 g1624 g1624.t15 cds g1624.t15.CDS1 12202457 12202594
chr_3 g1624 g1624.t15 exon g1624.t15.exon2 12202645 12203050
chr_3 g1624 g1624.t15 cds g1624.t15.CDS2 12202645 12203050
chr_3 g1624 g1624.t15 exon g1624.t15.exon3 12203437 12203532
chr_3 g1624 g1624.t15 cds g1624.t15.CDS3 12203437 12203532
chr_3 g1624 g1624.t15 exon g1624.t15.exon4 12203632 12204026
chr_3 g1624 g1624.t15 cds g1624.t15.CDS4 12203632 12203633
chr_3 g1624 g1624.t15 TTS g1624.t15 12204044 12204044

Sequences

>g1624.t15 Gene=g1624 Length=1035
ATGTCTTTCGTTCAGACAGTTATTAAGTGTCGTGCTGCAATATCTTGGAAAGCTAATCAG
GCTTTTTCGATAGAAGAAATTGAAGTCGCACCGCCACAAAGTGGCGAAGTTCGTGTTAAA
ATTATTGCAACTGGAATTTGTTTGACAGATGCTTCTGCGTCGCGTGGAAAAATACTTGAT
GTGAAATTTCCAATAATTCTCGGTCATGAAGCAGCAGGAATAGTTGAATCCGTTGGTGAA
GGAGTAAAAAGTGTAAAACCAGGCGATCATGTTATAACACTCTTTCTACCACAATGCAAA
AAATGTGAGGTTTGCAAGCGCGAAGACGCAAATACTTGTATGGAATTTTTCCATGGAAGT
CAAGCTCGTGGTGTGATGGATGATGGCAAATCAAGATTTAAATGCAAAGGAAAAGAAATT
TTCCAATTTATGGGAACTTCAACATTTACTGAATATTCAGTTTTGAAGGAAATTAATGTT
GCAAAAATTAATCCGAAAGCTCCTTTAGAGAAAGTTTGTCTTTTGGGTTGTGGTGTGCCA
ACAGGCTATGGTGGTTCAACGAAGACAGCAAAAGTAAGAGAAGGATCGACAGCAGCTGTT
TGGGGACTTGGAACAATTGGTCTTGCCTGTATACTTGGTTGAGATGTTTCGAAATCAATA
GAAGAATATTTGAATAAAAAATATGGCATGATTGATTACACTTTTGAGTGCGTAGGAACA
ATTCCAACAATGAAACAAGCATTCAAAACTGCAGCACTCGGTTACGGTGTATGTGTTCTT
GTTGGTGTAAGTCCACAAGATGAAGAAATTAATCTTTCACCAATTGACTTTCTTCTTGGC
CGTAAATTGACGGGAGAACTTTTTGGTTCATACAAAAGTGTAGATGATGTGCCAAAATTG
GTTGAAGAATATATGGAAGGAACAATACCACTAGAGAAATTCATAACTCATAATCTTTCA
TTCGATGAAATCAATGAGGGTTTTGAATTATTGCACAATGGCATATGCGTTCGTTGTGTT
TTAAATTACAAATAA

>g1624.t15 Gene=g1624 Length=213
MSFVQTVIKCRAAISWKANQAFSIEEIEVAPPQSGEVRVKIIATGICLTDASASRGKILD
VKFPIILGHEAAGIVESVGEGVKSVKPGDHVITLFLPQCKKCEVCKREDANTCMEFFHGS
QARGVMDDGKSRFKCKGKEIFQFMGTSTFTEYSVLKEINVAKINPKAPLEKVCLLGCGVP
TGYGGSTKTAKVREGSTAAVWGLGTIGLACILG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g1624.t15 Gene3D G3DSA:3.90.180.10 - 15 181 6.9E-75
5 g1624.t15 Gene3D G3DSA:3.40.50.720 - 182 212 6.9E-75
2 g1624.t15 PANTHER PTHR43880 ALCOHOL DEHYDROGENASE 6 212 7.4E-86
1 g1624.t15 Pfam PF08240 Alcohol dehydrogenase GroES-like domain 35 161 5.1E-25
4 g1624.t15 ProSitePatterns PS00059 Zinc-containing alcohol dehydrogenases signature. 68 82 -
3 g1624.t15 SUPERFAMILY SSF50129 GroES-like 6 188 5.35E-69

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