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.t12 TSS g15953.t12 7525541 7525541
chr_4 g15953 g15953.t12 isoform g15953.t12 7525601 7527866
chr_4 g15953 g15953.t12 exon g15953.t12.exon1 7525601 7525636
chr_4 g15953 g15953.t12 exon g15953.t12.exon2 7526077 7526282
chr_4 g15953 g15953.t12 exon g15953.t12.exon3 7526354 7527063
chr_4 g15953 g15953.t12 cds g15953.t12.CDS1 7526434 7526895
chr_4 g15953 g15953.t12 exon g15953.t12.exon4 7527217 7527866
chr_4 g15953 g15953.t12 TTS g15953.t12 7527880 7527880

Sequences

>g15953.t12 Gene=g15953 Length=1602
ATGGCAAATCCAAATCAAGAAGTTAAATATACAAAACTCTTTATCAACAATGAGTTTGTA
AATTCAGTTAGTGGCAAAACATTTGAGACCTTGAATCCATCGACAGAAAAGAAAATTGCT
GACATTGCTGAAGGTGATAAAGCTGATGTTGATTTAGCTGTTGCTGCTGCAAAGAAAGCT
TTTGAAAGAAAATCAGAATGGAGAAATTTAGATTCAACTGCGAGAGCTGCATTGTTGAAC
AACCGACCTAATCGCCCGTGACATTGACATCATTTCCAATCTTGAAGCTCTTGACACAGG
AAAGCCAATTGATCATGCAAAAATGCAAGTTGGTTGGGCTGTCAATGTGTTCCGAAGTGT
TGCATCATATGCCGATAAAATTTTCGGTCGTACAGTTCCAAGTGATGGTGCTCTCTTCAG
TTATACTCGTAAAGAACCAGTTGGTGTTGTTGGTCTTATCACACCATGGAATTATCCAAT
TCTACTTGTTGCTATGAAAGTTGGACCAGCATTAGCTGCTGGCTGCACAATTATTCATAA
GCCAGCTGAACAAACGCCATTGACTGCTTTATATGTTGCTGCATTATCAAAAGAAGCTGG
ATTTCCTGCTGGTGTCCTTAATGTTATTCCTGGTTATGGACCAACTGCTGGTGCTGCAAT
TACAAGCCATGCAGATGTCAGAAAAGTTGGTTTCACTGGTTCAACTGAGGTTGGAAAATT
AATCATGGAAGCAGCTGCAAAATCTAATTTGAAAAAAGTTTCATTAGGTAAAGTAATTTT
GTAAAATTTTATTTGAATGATAATAGAAGGAAACACTTGAAAAGAAAACAGTAATTAAAA
TTTTTTTGGATGAAACTATTAAAAATTTTAATTTTACTAATGACATGATGTTTATTTTTT
TCTATAGAACTTGGTGGCAAGAGTCCATTCGTGGTTTTTGATGACGTAAATTTGGACGAA
GTGATTCCAGTAGCAGTTGAAGGAGTTTTCACAAATGCAGGTCAAATTTGTATCGCTCCA
AGTCGAACATTTGTGCAAGAATCAATTTATGATGAATTTGTTAAGAAAGTTGTTGCATAT
GCGAAAAATAGAAAATTGGGCTCACAATTTACTAGTGGAGTACAACAAGGACCACAAGTT
GATAAAGATACTTTTGACAAAGTTTTGACTTACATTGAATATGGAAAACAAGATGGTGCA
AAATTGGAACTTGGTGGCAAACGATGGGGAACTGAAGGTTATTTCATTGAACCAACAATT
TTCTCAAATGTCACTGACAATATGAGAATTGCTCGTGATGAAATTTTCGGACCAGTCATG
TCAATTTTGAAATTTAAGACACTTGAAGAAGTAATTGATCGTGCAAATAATACTGAATAT
GGTTTGTCATCAACTGTTTTTACTAAAAATATTGAACAAGCTTTTGCATTTGCAAATCAA
GTTGAAGCTGGTAATGTGAAAGTTAACAGTGGCGGCATGGGAAATAATTTACCATTTGGT
GGTTATAAACAATCAGGAATCGGCAGAGAAGGCGGTGATTATGGTGTTGAATTGTATTTG
GAAACTAAAGCTGTGTCAATTAAAATGCCTTACAAAATGTAA

>g15953.t12 Gene=g15953 Length=153
MQVGWAVNVFRSVASYADKIFGRTVPSDGALFSYTRKEPVGVVGLITPWNYPILLVAMKV
GPALAAGCTIIHKPAEQTPLTALYVAALSKEAGFPAGVLNVIPGYGPTAGAAITSHADVR
KVGFTGSTEVGKLIMEAAAKSNLKKVSLGKVIL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g15953.t12 Gene3D G3DSA:3.40.605.10 Aldehyde Dehydrogenase; Chain A 1 150 0
2 g15953.t12 PANTHER PTHR11699:SF269 ALDEHYDE DEHYDROGENASE, MITOCHONDRIAL-LIKE PROTEIN 3 148 0
3 g15953.t12 PANTHER PTHR11699 ALDEHYDE DEHYDROGENASE-RELATED 3 148 0
1 g15953.t12 Pfam PF00171 Aldehyde dehydrogenase family 3 148 0
4 g15953.t12 SUPERFAMILY SSF53720 ALDH-like 2 148 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