Gene loci information

Transcript annotation

  • This transcript has been annotated as Aldehyde dehydrogenase, dimeric NADP-preferring.

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.t6 TSS g16094.t6 8130794 8130794
chr_4 g16094 g16094.t6 isoform g16094.t6 8130809 8135019
chr_4 g16094 g16094.t6 exon g16094.t6.exon1 8130809 8130818
chr_4 g16094 g16094.t6 exon g16094.t6.exon2 8132277 8132468
chr_4 g16094 g16094.t6 cds g16094.t6.CDS1 8132314 8132468
chr_4 g16094 g16094.t6 exon g16094.t6.exon3 8132561 8132736
chr_4 g16094 g16094.t6 cds g16094.t6.CDS2 8132561 8132736
chr_4 g16094 g16094.t6 exon g16094.t6.exon4 8132864 8133009
chr_4 g16094 g16094.t6 cds g16094.t6.CDS3 8132864 8133009
chr_4 g16094 g16094.t6 exon g16094.t6.exon5 8133065 8133146
chr_4 g16094 g16094.t6 cds g16094.t6.CDS4 8133065 8133146
chr_4 g16094 g16094.t6 exon g16094.t6.exon6 8133201 8133272
chr_4 g16094 g16094.t6 cds g16094.t6.CDS5 8133201 8133272
chr_4 g16094 g16094.t6 exon g16094.t6.exon7 8133334 8133357
chr_4 g16094 g16094.t6 cds g16094.t6.CDS6 8133334 8133357
chr_4 g16094 g16094.t6 exon g16094.t6.exon8 8133427 8133643
chr_4 g16094 g16094.t6 cds g16094.t6.CDS7 8133427 8133643
chr_4 g16094 g16094.t6 exon g16094.t6.exon9 8133745 8133942
chr_4 g16094 g16094.t6 cds g16094.t6.CDS8 8133745 8133942
chr_4 g16094 g16094.t6 exon g16094.t6.exon10 8133997 8134121
chr_4 g16094 g16094.t6 cds g16094.t6.CDS9 8133997 8134121
chr_4 g16094 g16094.t6 exon g16094.t6.exon11 8134905 8134953
chr_4 g16094 g16094.t6 cds g16094.t6.CDS10 8134905 8134953
chr_4 g16094 g16094.t6 exon g16094.t6.exon12 8135015 8135019
chr_4 g16094 g16094.t6 cds g16094.t6.CDS11 8135015 8135018
chr_4 g16094 g16094.t6 TTS g16094.t6 8135519 8135519

Sequences

>g16094.t6 Gene=g16094 Length=1296
GCTCATTCAATTAAAGTACAGCTAATTGAACCAAAAAAAAAAGAAACATGACATACGAGG
ACTTGATGAGTCGTGCCGCAACGGCATTTCAAAGCGGCAAAACCAAAGATATTGATTTTA
GAAGGAAACAGTTGAACGCATTGTTGCGAATGTATGAAGAGAATAAAGATGAAATGGCAC
GCGTTTTGGCTGCTGATTTGAGACGACCAAAGCAAGAATCCTACATTCTTGAAATTGAAT
TCCTTATAAATGACATCATCACAACAATCAACAGTCTCGATGAATGGACGAAGCCAATGA
AACCTGAAAAAGGAATTGTCAATATGATGGATGATGTTTTGATTTATCCTGATCCTCTTG
GTGTTGTTCTAGTCATGGGTGCATGGAATTATCCACTTCAACTCCCACTTGTTCCTTTTG
GTGCTGCAATTGCAGCTGGAAATGTTGCCATATTAAAACCTAGTGAAATTTCAGTCAATT
GTGCAAATTTCATTGCTGAAAATATTCCTAAATATTTGGATAATGAATGTTATCATGTTG
TATGTGGTGGAGTTCAAGAAACTACTGAACTTTTGAAGCATAAATTTGATTATATTTTTT
ATACTGGCTCTGGACGTGTTGGAAAAATTGTTTATGAAGCAGCAGCAAAACATTTAACAC
CGGTGACATTAGAATTGGGAGGAAAGTCACCTTGCTATATTGATAACACAGTTGACATTT
CAAAAGCAACACGACGAGTTTTATGGGGAAAATTTATTAATGCTGGTCAAACATGCATTG
CACCTGATTATATTTTGTGTACCAAAGAAATTCAAGATAAGTTTGTTAAAGAGGCTAAAG
TTGTACTTAAAGAATGGTATGGTGATGACATCAAAAAAAGTCCCGACTTTTGTAGAATTG
TAAATCAAGTTAATTTTCAACGTCTCACAAAGCTATTGAGCAGTGGAACAATTGCCGTTG
GTGGTAAAACCGATGCAGATGAAAGATTTATCGAACCAACAATCATTGTTGATGCAAAAT
CAACTGATGCTGTCATGCAAGAAGAAATTTTTGGTCCCATTTTACCTATTGTTAATATCA
ATAATGCATTTGAAGCCATAAAATTCATCACAGCAAGAGATAAACCATTGGCACTTTATA
TATTTTCAAACAACACAAATGATCGTCAAACAATTATTGAAAATACGTCATCAGGTGGTG
TTTGTGTCAATGACACTATTATGCATCTTGCTGTTGATACAATGCCTTTTGGTGGTGTTG
GACCAAGTGGTATGGGAGGTTATCATGGAAAGTACT

>g16094.t6 Gene=g16094 Length=416
MTYEDLMSRAATAFQSGKTKDIDFRRKQLNALLRMYEENKDEMARVLAADLRRPKQESYI
LEIEFLINDIITTINSLDEWTKPMKPEKGIVNMMDDVLIYPDPLGVVLVMGAWNYPLQLP
LVPFGAAIAAGNVAILKPSEISVNCANFIAENIPKYLDNECYHVVCGGVQETTELLKHKF
DYIFYTGSGRVGKIVYEAAAKHLTPVTLELGGKSPCYIDNTVDISKATRRVLWGKFINAG
QTCIAPDYILCTKEIQDKFVKEAKVVLKEWYGDDIKKSPDFCRIVNQVNFQRLTKLLSSG
TIAVGGKTDADERFIEPTIIVDAKSTDAVMQEEIFGPILPIVNINNAFEAIKFITARDKP
LALYIFSNNTNDRQTIIENTSSGGVCVNDTIMHLAVDTMPFGGVGPSGMGGYHGKY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g16094.t6 Coils Coil Coil 26 46 -
7 g16094.t6 Gene3D G3DSA:3.40.605.10 Aldehyde Dehydrogenase; Chain A 13 416 1.3E-169
8 g16094.t6 Gene3D G3DSA:3.40.309.10 Aldehyde Dehydrogenase; Chain A 212 407 1.3E-169
2 g16094.t6 PANTHER PTHR43570:SF29 ALDEHYDE DEHYDROGENASE TYPE III, ISOFORM Q 4 416 2.3E-214
3 g16094.t6 PANTHER PTHR43570 ALDEHYDE DEHYDROGENASE 4 416 2.3E-214
10 g16094.t6 PIRSF PIRSF036492 ALDH 1 416 4.2E-185
1 g16094.t6 Pfam PF00171 Aldehyde dehydrogenase family 3 415 1.2E-79
6 g16094.t6 ProSitePatterns PS00687 Aldehyde dehydrogenases glutamic acid active site. 208 215 -
5 g16094.t6 ProSitePatterns PS00070 Aldehyde dehydrogenases cysteine active site. 236 247 -
4 g16094.t6 SUPERFAMILY SSF53720 ALDH-like 5 416 9.03E-114

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:0006081 cellular aldehyde metabolic process BP
GO:0055114 NA NA
GO:0016491 oxidoreductase activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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.

Raw TPM values