Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Aldehyde dehydrogenase family 1 member A3.

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 g4120 g4120.t20 TTS g4120.t20 30727131 30727131
chr_3 g4120 g4120.t20 isoform g4120.t20 30727171 30728445
chr_3 g4120 g4120.t20 exon g4120.t20.exon1 30727171 30727823
chr_3 g4120 g4120.t20 exon g4120.t20.exon2 30727890 30727928
chr_3 g4120 g4120.t20 cds g4120.t20.CDS1 30727922 30727928
chr_3 g4120 g4120.t20 exon g4120.t20.exon3 30728132 30728445
chr_3 g4120 g4120.t20 cds g4120.t20.CDS2 30728132 30728424
chr_3 g4120 g4120.t20 TSS g4120.t20 NA NA

Sequences

>g4120.t20 Gene=g4120 Length=1006
CCGTGGAACTATCCAGCATTGATGGTTGTCTTCAAGTTGGCACCTATTTTAGCAACCGGC
TGCGTTTCAATTTTGAAACCAGCAGAACAAACTCCACTTTCTGCACTTTATATTGCATCA
TTAGTCAAAGAAGCAGGAATACCTGCTGGCGTAGTTAACGTAATTACTGGCTATGGGCCA
ACAGCTGGTGCCGCTATTGCATCACATCCTGATATTCGCAAGGTTGCATTTACAGGTTCA
ACTGAAGTTGGAAAATTAATTATGGAAGCTGCTGCAAAATCTAATTTGAAGAAAGTTTCA
TTAGAGTTGGGTGAGTGGTAAGAGTCCTCTTGTAATCTTTGATGATGTTAATCTTGATGA
AGTTGTTCCACTTGCTCAAGATGCTATTTTTACAAACTCTGGTCAGATTTGTTGTGGAGG
ATCAAGAACATTTGTACAAGAAAGAATTTATGATGAATTTGTCAAACGTACTGTTGAAAA
TGCAAAAAAAAGAAAAGTTGGTTGTCCATTCAAAGAGGATACTGTGCAAGGGCCACAAGT
TGATCAAGATACATTTGATAAGATCTTGAAATACATTGATTATGGCAAAGAAGATGGTGC
AAAATTGGAAGCCGGTGGAAAGAGATGGGGCAATGAAGGTTTCTATATTGAACCAACTGT
TTTCTCAAATGTTACTGACGATATGCGCATTGCACAAGATGAAATTTTCGGACCTGTTCA
ATCGATTCTCAAGTTCAAGACAATTGATGAAGTTATTGAGCGTGCTAATAATACAACTTA
TGGATTAGCTGCTGGTGTCTTTACAAATGACATCAATAAAGCTTTGACATTTGCAAATGC
AGTCGAAGCTGGATCAGTTTGGGTTAATTGTTATAATGCAACAAATGTTTGCTCTCCTTT
CGGAGGCTACAAACAGAGTGGTATTGGAAGAGAATTGGGAGAAGAAGGAATCAATTTATA
CTTGGAAACTAAAGCAGTTTCTATTAAATTACCAGCCAAAAATTAA

>g4120.t20 Gene=g4120 Length=99
MVVFKLAPILATGCVSILKPAEQTPLSALYIASLVKEAGIPAGVVNVITGYGPTAGAAIA
SHPDIRKVAFTGSTEVGKLIMEAAAKSNLKKVSLELGEW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g4120.t20 Gene3D G3DSA:3.40.605.10 Aldehyde Dehydrogenase; Chain A 1 98 1.4E-44
2 g4120.t20 PANTHER PTHR11699:SF269 ALDEHYDE DEHYDROGENASE, MITOCHONDRIAL-LIKE PROTEIN 1 97 2.2E-45
3 g4120.t20 PANTHER PTHR11699 ALDEHYDE DEHYDROGENASE-RELATED 1 97 2.2E-45
1 g4120.t20 Pfam PF00171 Aldehyde dehydrogenase family 1 97 2.9E-38
7 g4120.t20 Phobius SIGNAL_PEPTIDE Signal peptide region 1 23 -
8 g4120.t20 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 5 -
9 g4120.t20 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 6 18 -
10 g4120.t20 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 19 23 -
6 g4120.t20 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 24 99 -
4 g4120.t20 SUPERFAMILY SSF53720 ALDH-like 1 97 5.89E-37

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