Gene loci information

Transcript annotation

  • This transcript has been annotated as Aldehyde dehydrogenase, cytosolic 1.

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_4 g15953 g15953.t6 TSS g15953.t6 7525541 7525541
chr_4 g15953 g15953.t6 isoform g15953.t6 7525601 7527341
chr_4 g15953 g15953.t6 exon g15953.t6.exon1 7525601 7525636
chr_4 g15953 g15953.t6 cds g15953.t6.CDS1 7525601 7525636
chr_4 g15953 g15953.t6 exon g15953.t6.exon2 7526077 7526282
chr_4 g15953 g15953.t6 cds g15953.t6.CDS2 7526077 7526282
chr_4 g15953 g15953.t6 exon g15953.t6.exon3 7526349 7526878
chr_4 g15953 g15953.t6 cds g15953.t6.CDS3 7526349 7526878
chr_4 g15953 g15953.t6 exon g15953.t6.exon4 7527184 7527341
chr_4 g15953 g15953.t6 cds g15953.t6.CDS4 7527184 7527194
chr_4 g15953 g15953.t6 TTS g15953.t6 7527880 7527880

Sequences

>g15953.t6 Gene=g15953 Length=930
ATGGCAAATCCAAATCAAGAAGTTAAATATACAAAACTCTTTATCAACAATGAGTTTGTA
AATTCAGTTAGTGGCAAAACATTTGAGACCTTGAATCCATCGACAGAAAAGAAAATTGCT
GACATTGCTGAAGGTGATAAAGCTGATGTTGATTTAGCTGTTGCTGCTGCAAAGAAAGCT
TTTGAAAGAAAATCAGAATGGAGAAATTTAGATTCAACTGCGAGAGCTGCATTGTTGAAC
AAACTAGCCGACCTAATCGCCCGTGACATTGACATCATTTCCAATCTTGAAGCTCTTGAC
ACAGGAAAGCCAATTGATCATGCAAAAATGCAAGTTGGTTGGGCTGTCAATGTGTTCCGA
AGTGTTGCATCATATGCCGATAAAATTTTCGGTCGTACAGTTCCAAGTGATGGTGCTCTC
TTCAGTTATACTCGTAAAGAACCAGTTGGTGTTGTTGGTCTTATCACACCATGGAATTAT
CCAATTCTACTTGTTGCTATGAAAGTTGGACCAGCATTAGCTGCTGGCTGCACAATTATT
CATAAGCCAGCTGAACAAACGCCATTGACTGCTTTATATGTTGCTGCATTATCAAAAGAA
GCTGGATTTCCTGCTGGTGTCCTTAATGTTATTCCTGGTTATGGACCAACTGCTGGTGCT
GCAATTACAAGCCATGCAGATGTCAGAAAAGTTGGTTTCACTGGTTCAACTGAGGTTGGA
AAATTAATCATGGAAGCAGCTGCAAAATCTAATTTGAAAAAAGTTTCATTAGAAAAATTA
TAAATTTGTTTTCAAAATTTTCTAGTGGACGAAGTGATTCCAGTAGCAGTTGAAGGAGTT
TTCACAAATGCAGGTCAAATTTGTATCGCTCCAAGTCGAACATTTGTGCAAGAATCAATT
TATGATGAATTTGTTAAGAAAGTTGTTGCA

>g15953.t6 Gene=g15953 Length=260
MANPNQEVKYTKLFINNEFVNSVSGKTFETLNPSTEKKIADIAEGDKADVDLAVAAAKKA
FERKSEWRNLDSTARAALLNKLADLIARDIDIISNLEALDTGKPIDHAKMQVGWAVNVFR
SVASYADKIFGRTVPSDGALFSYTRKEPVGVVGLITPWNYPILLVAMKVGPALAAGCTII
HKPAEQTPLTALYVAALSKEAGFPAGVLNVIPGYGPTAGAAITSHADVRKVGFTGSTEVG
KLIMEAAAKSNLKKVSLEKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g15953.t6 Gene3D G3DSA:3.40.605.10 Aldehyde Dehydrogenase; Chain A 1 259 0
2 g15953.t6 PANTHER PTHR11699:SF269 ALDEHYDE DEHYDROGENASE, MITOCHONDRIAL-LIKE PROTEIN 4 258 0
3 g15953.t6 PANTHER PTHR11699 ALDEHYDE DEHYDROGENASE-RELATED 4 258 0
1 g15953.t6 Pfam PF00171 Aldehyde dehydrogenase family 20 258 0
4 g15953.t6 SUPERFAMILY SSF53720 ALDH-like 6 258 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