Gene loci information

Transcript annotation

  • This transcript has been annotated as Aldehyde dehydrogenase, mitochondrial.

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 g4122 g4122.t20 TTS g4122.t20 30743782 30743782
chr_3 g4122 g4122.t20 isoform g4122.t20 30744402 30745693
chr_3 g4122 g4122.t20 exon g4122.t20.exon1 30744402 30744541
chr_3 g4122 g4122.t20 cds g4122.t20.CDS1 30744538 30744541
chr_3 g4122 g4122.t20 exon g4122.t20.exon2 30744722 30745144
chr_3 g4122 g4122.t20 cds g4122.t20.CDS2 30744722 30745144
chr_3 g4122 g4122.t20 exon g4122.t20.exon3 30745203 30745319
chr_3 g4122 g4122.t20 cds g4122.t20.CDS3 30745203 30745319
chr_3 g4122 g4122.t20 exon g4122.t20.exon4 30745375 30745580
chr_3 g4122 g4122.t20 cds g4122.t20.CDS4 30745375 30745580
chr_3 g4122 g4122.t20 exon g4122.t20.exon5 30745637 30745693
chr_3 g4122 g4122.t20 cds g4122.t20.CDS5 30745637 30745693
chr_3 g4122 g4122.t20 TSS g4122.t20 30745933 30745933

Sequences

>g4122.t20 Gene=g4122 Length=943
ATGGAAACTCCAAAAAATCCTAATCCAAATCCAGATCAAGAAATTCAGTTCACGAAGCTT
TTTATCAACAATGAATTCGTTGATTCAATCAGTAAAAAGACTTTTGCTACAATTAACCCA
GCAAATGGCAAAAAAATCGCTGACATCGCTGAAGCTGATAAGGCTGATGTCGATTTAGCA
GTTAAAGCTGCACAAAAAGCATTCGAACGTGGCTCTGAATGGCGAAATTTAGATGCTTCA
GCTCGTGGAAGATTACTTTATCGTTTAGCGGACCTAATTGACCGTGATTCAGCTATTCTC
TCCAATTTGGAAACATTAGACAATGGAAAACCTTATGAAGATGCATGTCTGGATGTTTTG
TTTAGTGGTGAATTTTTACGTTATTATGCGGGATTATGTGACAAAATTCATGGCAGAACT
GTTCCAAGTGATGGCAATCTTTTTAGTTATGTTCGCAAAGAACCAATTGGTGTAGTAGGC
CAAATTATACCTTGGAATTATCCTCTTATGATGGTAAGCTGGAAATGGGCACCGGCTTTA
GCTGCTGGATGCACAATAGTACTTAAACCAGCAGAACAAACTCCCCTTTCGGCTTTATAT
GTCGCAAATCTCGCGAAAGAAGCGGGTTTTCCTGCTGGCGTAGTTAACGTAATTACTGGC
TATGGGCCAACTGTTGGTGCCGCTATTGCATCACATCCTGATATTCGCAAGGTTGCATTT
ACAGGCTCAACTGAAGTTGGAAAATTAATTATGGAAGCTGCTGCAAAATCAAATTTGAAG
AAAGTTTCATTAGAGTTGGGTAATTGATGAAGCAGTTGATATTGCTCATAATGCAATATT
TGCAAACCATGGTCAAAACTGTTGTGCTGGTTCTCGTACATTCGTTCATGAGAAAATTTA
TGATGAATTTGTAGAAAAAGCAGCTGAAATGGCCAAAAATAGA

>g4122.t20 Gene=g4122 Length=268
METPKNPNPNPDQEIQFTKLFINNEFVDSISKKTFATINPANGKKIADIAEADKADVDLA
VKAAQKAFERGSEWRNLDASARGRLLYRLADLIDRDSAILSNLETLDNGKPYEDACLDVL
FSGEFLRYYAGLCDKIHGRTVPSDGNLFSYVRKEPIGVVGQIIPWNYPLMMVSWKWAPAL
AAGCTIVLKPAEQTPLSALYVANLAKEAGFPAGVVNVITGYGPTVGAAIASHPDIRKVAF
TGSTEVGKLIMEAAAKSNLKKVSLELGN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g4122.t20 Gene3D G3DSA:3.40.605.10 Aldehyde Dehydrogenase; Chain A 1 268 0
2 g4122.t20 PANTHER PTHR11699:SF269 ALDEHYDE DEHYDROGENASE, MITOCHONDRIAL-LIKE PROTEIN 11 267 0
3 g4122.t20 PANTHER PTHR11699 ALDEHYDE DEHYDROGENASE-RELATED 11 267 0
1 g4122.t20 Pfam PF00171 Aldehyde dehydrogenase family 27 267 0
4 g4122.t20 SUPERFAMILY SSF53720 ALDH-like 13 267 0

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: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