Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t12 TSS g16094.t12 8132276 8132276
chr_4 g16094 g16094.t12 isoform g16094.t12 8132314 8135379
chr_4 g16094 g16094.t12 exon g16094.t12.exon1 8132314 8132472
chr_4 g16094 g16094.t12 exon g16094.t12.exon2 8132561 8132736
chr_4 g16094 g16094.t12 cds g16094.t12.CDS1 8132655 8132736
chr_4 g16094 g16094.t12 exon g16094.t12.exon3 8132864 8133009
chr_4 g16094 g16094.t12 cds g16094.t12.CDS2 8132864 8133009
chr_4 g16094 g16094.t12 exon g16094.t12.exon4 8133065 8133146
chr_4 g16094 g16094.t12 cds g16094.t12.CDS3 8133065 8133146
chr_4 g16094 g16094.t12 exon g16094.t12.exon5 8133201 8133272
chr_4 g16094 g16094.t12 cds g16094.t12.CDS4 8133201 8133272
chr_4 g16094 g16094.t12 exon g16094.t12.exon6 8133427 8133643
chr_4 g16094 g16094.t12 cds g16094.t12.CDS5 8133427 8133643
chr_4 g16094 g16094.t12 exon g16094.t12.exon7 8133745 8133942
chr_4 g16094 g16094.t12 cds g16094.t12.CDS6 8133745 8133942
chr_4 g16094 g16094.t12 exon g16094.t12.exon8 8133997 8134121
chr_4 g16094 g16094.t12 cds g16094.t12.CDS7 8133997 8134121
chr_4 g16094 g16094.t12 exon g16094.t12.exon9 8134905 8134957
chr_4 g16094 g16094.t12 cds g16094.t12.CDS8 8134905 8134957
chr_4 g16094 g16094.t12 exon g16094.t12.exon10 8135015 8135092
chr_4 g16094 g16094.t12 cds g16094.t12.CDS9 8135015 8135026
chr_4 g16094 g16094.t12 exon g16094.t12.exon11 8135168 8135379
chr_4 g16094 g16094.t12 TTS g16094.t12 8135519 8135519

Sequences

>g16094.t12 Gene=g16094 Length=1518
ATGACATACGAGGACTTGATGAGTCGTGCCGCAACGGCATTTCAAAGCGGCAAAACCAAA
GATATTGATTTTAGAAGGAAACAGTTGAACGCATTGTTGCGAATGTATGAAGAGAATAAA
GATGAAATGGCACGCGTTTTGGCTGCTGATTTGAGGTTTACGACCAAAGCAAGAATCCTA
CATTCTTGAAATTGAATTCCTTATAAATGACATCATCACAACAATCAACAGTCTCGATGA
ATGGACGAAGCCAATGAAACCTGAAAAAGGAATTGTCAATATGATGGATGATGTTTTGAT
TTATCCTGATCCTCTTGGTGTTGTTCTAGTCATGGGTGCATGGAATTATCCACTTCAACT
CCCACTTGTTCCTTTTGGTGCTGCAATTGCAGCTGGAAATGTTGCCATATTAAAACCTAG
TGAAATTTCAGTCAATTGTGCAAATTTCATTGCTGAAAATATTCCTAAATATTTGGATAA
TGAATGTTATCATGTTGTATGTGGTGGAGTTCAAGAAACTACTGAACTTTTGAAGCATAA
ATTTGATTATATTTTTTATACTGGCTCTGGACGTGTTGGAAAAATTGTTTATGAAGCAGC
AGCAAAACATTTAACACCGGTGACATTAGAATTGGATAACACAGTTGACATTTCAAAAGC
AACACGACGAGTTTTATGGGGAAAATTTATTAATGCTGGTCAAACATGCATTGCACCTGA
TTATATTTTGTGTACCAAAGAAATTCAAGATAAGTTTGTTAAAGAGGCTAAAGTTGTACT
TAAAGAATGGTATGGTGATGACATCAAAAAAAGTCCCGACTTTTGTAGAATTGTAAATCA
AGTTAATTTTCAACGTCTCACAAAGCTATTGAGCAGTGGAACAATTGCCGTTGGTGGTAA
AACCGATGCAGATGAAAGATTTATCGAACCAACAATCATTGTTGATGCAAAATCAACTGA
TGCTGTCATGCAAGAAGAAATTTTTGGTCCCATTTTACCTATTGTTAATATCAATAATGC
ATTTGAAGCCATAAAATTCATCACAGCAAGAGATAAACCATTGGCACTTTATATATTTTC
AAACAACACAAATGATCGTCAAACAATTATTGAAAATACGTCATCAGGTGGTGTTTGTGT
CAATGACACTATTATGCATCTTGCTGTTGATACAATGCCTTTTGGTGGTGTTGGACCAAG
TGGTATGGGAGGTTATCATGGAAAGTATGTACTCATTTGATACATTTTCGCATAAAAAAT
CTTGCTTGGTAAAGAAAATTGACACAATCAGTGAGAAACTGTCAAATGACAAAAAGATCA
ACTATTTGACTTTTCTTACTAAAAAACGTAAAGGCTTTTCAATTCCTTACTTACCACAGT
TAGTTTTGCTTGGAGTTGGTGTTGCTGCAACGATTTTCGTTCAACGCATTTTGCCTGAAG
TATTAAAGAATAAGAAATTTGAAATATTTAGTATTGCATTAACAGCTATATTCAAACTTT
TTACAGTGTGAACAGTAG

>g16094.t12 Gene=g16094 Length=328
MKPEKGIVNMMDDVLIYPDPLGVVLVMGAWNYPLQLPLVPFGAAIAAGNVAILKPSEISV
NCANFIAENIPKYLDNECYHVVCGGVQETTELLKHKFDYIFYTGSGRVGKIVYEAAAKHL
TPVTLELDNTVDISKATRRVLWGKFINAGQTCIAPDYILCTKEIQDKFVKEAKVVLKEWY
GDDIKKSPDFCRIVNQVNFQRLTKLLSSGTIAVGGKTDADERFIEPTIIVDAKSTDAVMQ
EEIFGPILPIVNINNAFEAIKFITARDKPLALYIFSNNTNDRQTIIENTSSGGVCVNDTI
MHLAVDTMPFGGVGPSGMGGYHGKYVLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g16094.t12 Gene3D G3DSA:3.40.605.10 Aldehyde Dehydrogenase; Chain A 4 325 9.5E-136
7 g16094.t12 Gene3D G3DSA:3.40.309.10 Aldehyde Dehydrogenase; Chain A 128 316 9.5E-136
2 g16094.t12 PANTHER PTHR43570:SF29 ALDEHYDE DEHYDROGENASE TYPE III, ISOFORM Q 2 326 2.0E-169
3 g16094.t12 PANTHER PTHR43570 ALDEHYDE DEHYDROGENASE 2 326 2.0E-169
1 g16094.t12 Pfam PF00171 Aldehyde dehydrogenase family 14 327 3.9E-63
5 g16094.t12 ProSitePatterns PS00070 Aldehyde dehydrogenases cysteine active site. 145 156 -
4 g16094.t12 SUPERFAMILY SSF53720 ALDH-like 13 327 2.75E-91

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

## Warning: Removed 1 row(s) containing missing values (geom_path).

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