Gene loci information

Transcript annotation

  • This transcript has been annotated as Aldehyde dehydrogenase, mitochondrial.

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_1 g9968 g9968.t11 TSS g9968.t11 6291027 6291027
chr_1 g9968 g9968.t11 isoform g9968.t11 6291223 6293445
chr_1 g9968 g9968.t11 exon g9968.t11.exon1 6291223 6291318
chr_1 g9968 g9968.t11 cds g9968.t11.CDS1 6291223 6291318
chr_1 g9968 g9968.t11 exon g9968.t11.exon2 6291523 6291768
chr_1 g9968 g9968.t11 cds g9968.t11.CDS2 6291523 6291768
chr_1 g9968 g9968.t11 exon g9968.t11.exon3 6291825 6291915
chr_1 g9968 g9968.t11 cds g9968.t11.CDS3 6291825 6291915
chr_1 g9968 g9968.t11 exon g9968.t11.exon4 6291980 6292053
chr_1 g9968 g9968.t11 cds g9968.t11.CDS4 6291980 6292053
chr_1 g9968 g9968.t11 exon g9968.t11.exon5 6292111 6292186
chr_1 g9968 g9968.t11 cds g9968.t11.CDS5 6292111 6292186
chr_1 g9968 g9968.t11 exon g9968.t11.exon6 6292241 6292325
chr_1 g9968 g9968.t11 cds g9968.t11.CDS6 6292241 6292325
chr_1 g9968 g9968.t11 exon g9968.t11.exon7 6292453 6292616
chr_1 g9968 g9968.t11 cds g9968.t11.CDS7 6292453 6292616
chr_1 g9968 g9968.t11 exon g9968.t11.exon8 6292695 6292720
chr_1 g9968 g9968.t11 cds g9968.t11.CDS8 6292695 6292720
chr_1 g9968 g9968.t11 exon g9968.t11.exon9 6292780 6293445
chr_1 g9968 g9968.t11 cds g9968.t11.CDS9 6292780 6293445
chr_1 g9968 g9968.t11 TTS g9968.t11 6293623 6293623

Sequences

>g9968.t11 Gene=g9968 Length=1524
ATGTTAAGAACAACAGTTCGTTCATTTATTAAAATTCATCAAAGATTTTATTCAATTCCT
GCAGCTCAAACGAATCCAGAGATACTTTATAGTGGAATTTTCATAAATAATGAATGGCAT
AAATCGGAATCGGGCAAGACTTTTAAAACAATTGATCCAACAACTGAAAATGTTATTGCT
GAAATTCAAGAATCATCAAAAGTTGATGTTGATAAGGCAGTAGCTGCTGCAAAGAGTGCT
TTTAAATTGGGTTCACCATGGAGACGTATGGATGCTAGTGAACGAGGTAATTTGCTTTTT
AAACTTGCTGACTTGATGGAGAGAGATCGCGTTTATCTTGCTAGTTTAGAAACTCTTGAT
AATGGCAAACCTTATGCAATGAGTTACAATGTTGACCTACCAATGGCAATCAAAAATCTT
CGTTATTATGCCGGTTGGGCAGATAAGAACCATGGAAAAGTTATTCCAATGGATGGAGAG
TTCTTTGCTTATACTCGACATGAACCAGTTGGTGTATGTGGGCAGATTATACCATGGAAT
TTTCCTATTTTGATGGCTGCATGGAAATTGGGACCAGCACTCGCTACCGGAAACACTATC
GTTTTGAAACCGGCTGAACAAACACCACTTACTGCTTTATACATTGCTCAATTGAGTCGT
GAAGCAGGTTTTAAATATTTATTAGTCGTTCCGGGTTTCGGTGAAACTGGACAACATTTA
GTAAATCATAATGATATTGATAAGATTGCTTTTACTGGTAGTACAGAAGTTGGAAAATTA
ATCAAGGCTGGTGCAGCAAACACACTGAAGAGAACAACACTCGAACTTGGAGGCAAATCA
CCAAATATTATTTTATCGGATGCCGATATGAGTCATGCTGTAGAGACTTCACATTTTGGT
CTTTTCTTCAACATGGGTCAATGTTGTTGTGCAGGTTCAAGAACATTTGTAGAAGACAAG
ATTTATGATGAGTTTGTTGAGAGATCAGCAGAACGTGCAAAACGTAGAACTTTTGGAAAT
CCATTTGACTTATCAACTGAACAAGGTCCACAAATCGATGCAATTCAACAAAATAAAATT
CTTGGTCTAATTGAAACAGGCAAAAAACAAGGAGCAAAACTTGTCGCTGGAGGAAATCCT
GTAAATATGAAAGGATATTTTGTTGAGCCAACTGTTTTTGCTGATGTAAAAGACGATATG
ACAATCGCAAGAGAAGAAATTTTCGGACCTGTTCAACAAATTATTCGTTTTAAGAAGCTT
GATGAAGTGATTGAAAGAGCCAACAATACAGATTATGGTCTTGCAGCTGCAGTCTTTTCA
AAAGATCTTGACAAAGTCAATTATCTTATTCAAGGCATTCGTGCAGGTACAGTCTGGGTG
AATACTTATAATATTTTAGGAGCGCAAGTTCCATTCGGTGGATTTAAAATGAGCGGACAT
GGTCGAGAAAATGCGGAATATGGATTGCAGAATTATACAGAAGTCAAGAGCGTTATCATG
CGCATACCACAGAAAAATTCATAA

>g9968.t11 Gene=g9968 Length=507
MLRTTVRSFIKIHQRFYSIPAAQTNPEILYSGIFINNEWHKSESGKTFKTIDPTTENVIA
EIQESSKVDVDKAVAAAKSAFKLGSPWRRMDASERGNLLFKLADLMERDRVYLASLETLD
NGKPYAMSYNVDLPMAIKNLRYYAGWADKNHGKVIPMDGEFFAYTRHEPVGVCGQIIPWN
FPILMAAWKLGPALATGNTIVLKPAEQTPLTALYIAQLSREAGFKYLLVVPGFGETGQHL
VNHNDIDKIAFTGSTEVGKLIKAGAANTLKRTTLELGGKSPNIILSDADMSHAVETSHFG
LFFNMGQCCCAGSRTFVEDKIYDEFVERSAERAKRRTFGNPFDLSTEQGPQIDAIQQNKI
LGLIETGKKQGAKLVAGGNPVNMKGYFVEPTVFADVKDDMTIAREEIFGPVQQIIRFKKL
DEVIERANNTDYGLAAAVFSKDLDKVNYLIQGIRAGTVWVNTYNILGAQVPFGGFKMSGH
GRENAEYGLQNYTEVKSVIMRIPQKNS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g9968.t11 CDD cd07141 ALDH_F1AB_F2_RALDH1 25 501 0.0
7 g9968.t11 Gene3D G3DSA:3.40.605.10 Aldehyde Dehydrogenase; Chain A 47 498 3.3E-187
8 g9968.t11 Gene3D G3DSA:3.40.309.10 Aldehyde Dehydrogenase; Chain A 280 469 3.3E-187
2 g9968.t11 PANTHER PTHR11699:SF274 DEHYDROGENASE, PUTATIVE-RELATED 19 506 9.7E-236
3 g9968.t11 PANTHER PTHR11699 ALDEHYDE DEHYDROGENASE-RELATED 19 506 9.7E-236
1 g9968.t11 Pfam PF00171 Aldehyde dehydrogenase family 39 498 1.5E-174
6 g9968.t11 ProSitePatterns PS00687 Aldehyde dehydrogenases glutamic acid active site. 274 281 -
5 g9968.t11 ProSitePatterns PS00070 Aldehyde dehydrogenases cysteine active site. 302 313 -
4 g9968.t11 SUPERFAMILY SSF53720 ALDH-like 23 502 5.5E-170

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

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