Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Aldehyde dehydrogenase family 3 member A2.

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 g16094 g16094.t15 TSS g16094.t15 8132276 8132276
chr_4 g16094 g16094.t15 isoform g16094.t15 8132314 8135379
chr_4 g16094 g16094.t15 exon g16094.t15.exon1 8132314 8132736
chr_4 g16094 g16094.t15 exon g16094.t15.exon2 8132864 8133009
chr_4 g16094 g16094.t15 exon g16094.t15.exon3 8133065 8133150
chr_4 g16094 g16094.t15 exon g16094.t15.exon4 8133201 8133272
chr_4 g16094 g16094.t15 exon g16094.t15.exon5 8133334 8133357
chr_4 g16094 g16094.t15 exon g16094.t15.exon6 8133427 8133643
chr_4 g16094 g16094.t15 exon g16094.t15.exon7 8133745 8133942
chr_4 g16094 g16094.t15 cds g16094.t15.CDS1 8133860 8133942
chr_4 g16094 g16094.t15 exon g16094.t15.exon8 8133997 8134121
chr_4 g16094 g16094.t15 cds g16094.t15.CDS2 8133997 8134121
chr_4 g16094 g16094.t15 exon g16094.t15.exon9 8134905 8134953
chr_4 g16094 g16094.t15 cds g16094.t15.CDS3 8134905 8134953
chr_4 g16094 g16094.t15 exon g16094.t15.exon10 8135015 8135092
chr_4 g16094 g16094.t15 cds g16094.t15.CDS4 8135015 8135092
chr_4 g16094 g16094.t15 exon g16094.t15.exon11 8135147 8135300
chr_4 g16094 g16094.t15 cds g16094.t15.CDS5 8135147 8135300
chr_4 g16094 g16094.t15 exon g16094.t15.exon12 8135368 8135379
chr_4 g16094 g16094.t15 cds g16094.t15.CDS6 8135368 8135379
chr_4 g16094 g16094.t15 TTS g16094.t15 8135519 8135519

Sequences

>g16094.t15 Gene=g16094 Length=1584
ATGACATACGAGGACTTGATGAGTCGTGCCGCAACGGCATTTCAAAGCGGCAAAACCAAA
GATATTGATTTTAGAAGGAAACAGTTGAACGCATTGTTGCGAATGTATGAAGAGAATAAA
GATGAAATGGCACGCGTTTTGGCTGCTGATTTGAGGTTTGTGAAGTTTTTTAAAAAATCT
TTATTGTAACAAAATTGCTTAGTTTCAAAATTTATCTCATACAAATTACTAATTTTAATA
TTTTTAGACGACCAAAGCAAGAATCCTACATTCTTGAAATTGAATTCCTTATAAATGACA
TCATCACAACAATCAACAGTCTCGATGAATGGACGAAGCCAATGAAACCTGAAAAAGGAA
TTGTCAATATGATGGATGATGTTTTGATTTATCCTGATCCTCTTGGTGTTGTTCTAGTCA
TGGGTGCATGGAATTATCCACTTCAACTCCCACTTGTTCCTTTTGGTGCTGCAATTGCAG
CTGGAAATGTTGCCATATTAAAACCTAGTGAAATTTCAGTCAATTGTGCAAATTTCATTG
CTGAAAATATTCCTAAATATTTGGATAATGAATGTTATCATGTTGTATGTGGTGGAGTTC
AAGAAACTACTGAACTTTTGAAGCATAAATTTGATTATATTTTTTATACTGGTGAGCTCT
GGACGTGTTGGAAAAATTGTTTATGAAGCAGCAGCAAAACATTTAACACCGGTGACATTA
GAATTGGGAGGAAAGTCACCTTGCTATATTGATAACACAGTTGACATTTCAAAAGCAACA
CGACGAGTTTTATGGGGAAAATTTATTAATGCTGGTCAAACATGCATTGCACCTGATTAT
ATTTTGTGTACCAAAGAAATTCAAGATAAGTTTGTTAAAGAGGCTAAAGTTGTACTTAAA
GAATGGTATGGTGATGACATCAAAAAAAGTCCCGACTTTTGTAGAATTGTAAATCAAGTT
AATTTTCAACGTCTCACAAAGCTATTGAGCAGTGGAACAATTGCCGTTGGTGGTAAAACC
GATGCAGATGAAAGATTTATCGAACCAACAATCATTGTTGATGCAAAATCAACTGATGCT
GTCATGCAAGAAGAAATTTTTGGTCCCATTTTACCTATTGTTAATATCAATAATGCATTT
GAAGCCATAAAATTCATCACAGCAAGAGATAAACCATTGGCACTTTATATATTTTCAAAC
AACACAAATGATCGTCAAACAATTATTGAAAATACGTCATCAGGTGGTGTTTGTGTCAAT
GACACTATTATGCATCTTGCTGTTGATACAATGCCTTTTGGTGGTGTTGGACCAAGTGGT
ATGGGAGGTTATCATGGAAAGTACTCATTTGATACATTTTCGCATAAAAAATCTTGCTTG
GTAAAGAAAATTGACACAATCAGTGAGAAACTGTCAAATGCACGCTATCCACCATATAGT
GACAAAAAGATCAACTATTTGACTTTTCTTACTAAAAAACGTAAAGGCTTTTCAATTCCT
TACTTACCACAGTTAGTTTTGCTTGGAGTTGGTGTTGCTGCAACGATTTTCGTTCAACGC
ATTTTGCCTGAATGTGAACAGTAG

>g16094.t15 Gene=g16094 Length=166
MQEEIFGPILPIVNINNAFEAIKFITARDKPLALYIFSNNTNDRQTIIENTSSGGVCVND
TIMHLAVDTMPFGGVGPSGMGGYHGKYSFDTFSHKKSCLVKKIDTISEKLSNARYPPYSD
KKINYLTFLTKKRKGFSIPYLPQLVLLGVGVAATIFVQRILPECEQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g16094.t15 Gene3D G3DSA:3.40.309.10 Aldehyde Dehydrogenase; Chain A 1 78 4.2E-44
6 g16094.t15 Gene3D G3DSA:3.40.605.10 Aldehyde Dehydrogenase; Chain A 79 98 4.2E-44
2 g16094.t15 PANTHER PTHR43570:SF29 ALDEHYDE DEHYDROGENASE TYPE III, ISOFORM Q 1 161 3.3E-69
3 g16094.t15 PANTHER PTHR43570 ALDEHYDE DEHYDROGENASE 1 161 3.3E-69
1 g16094.t15 Pfam PF00171 Aldehyde dehydrogenase family 1 97 3.9E-17
8 g16094.t15 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 139 -
10 g16094.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 140 161 -
9 g16094.t15 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 162 166 -
5 g16094.t15 SUPERFAMILY SSF53720 ALDH-like 1 101 9.56E-29
4 g16094.t15 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 135 157 -

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:0016620 oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor 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