General information for g9968.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Aldehyde dehydrogenase, mitochondrial.
Parent gene
- The parent gene g9968 is located on chr_1: 6293445..6300765 (+ strand)
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.t12 | TSS | g9968.t12 | 6291027 | 6291027 |
| chr_1 | g9968 | g9968.t12 | isoform | g9968.t12 | 6291223 | 6293445 |
| chr_1 | g9968 | g9968.t12 | exon | g9968.t12.exon1 | 6291223 | 6291318 |
| chr_1 | g9968 | g9968.t12 | exon | g9968.t12.exon2 | 6291523 | 6291768 |
| chr_1 | g9968 | g9968.t12 | exon | g9968.t12.exon3 | 6291825 | 6291915 |
| chr_1 | g9968 | g9968.t12 | exon | g9968.t12.exon4 | 6291980 | 6292186 |
| chr_1 | g9968 | g9968.t12 | cds | g9968.t12.CDS1 | 6292156 | 6292186 |
| chr_1 | g9968 | g9968.t12 | exon | g9968.t12.exon5 | 6292241 | 6292325 |
| chr_1 | g9968 | g9968.t12 | cds | g9968.t12.CDS2 | 6292241 | 6292325 |
| chr_1 | g9968 | g9968.t12 | exon | g9968.t12.exon6 | 6292450 | 6292616 |
| chr_1 | g9968 | g9968.t12 | cds | g9968.t12.CDS3 | 6292450 | 6292616 |
| chr_1 | g9968 | g9968.t12 | exon | g9968.t12.exon7 | 6292695 | 6292720 |
| chr_1 | g9968 | g9968.t12 | cds | g9968.t12.CDS4 | 6292695 | 6292720 |
| chr_1 | g9968 | g9968.t12 | exon | g9968.t12.exon8 | 6292780 | 6293445 |
| chr_1 | g9968 | g9968.t12 | cds | g9968.t12.CDS5 | 6292780 | 6293445 |
| chr_1 | g9968 | g9968.t12 | TTS | g9968.t12 | 6293623 | 6293623 |
Sequences
>g9968.t12 Gene=g9968 Length=1584
ATGTTAAGAACAACAGTTCGTTCATTTATTAAAATTCATCAAAGATTTTATTCAATTCCT
GCAGCTCAAACGAATCCAGAGATACTTTATAGTGGAATTTTCATAAATAATGAATGGCAT
AAATCGGAATCGGGCAAGACTTTTAAAACAATTGATCCAACAACTGAAAATGTTATTGCT
GAAATTCAAGAATCATCAAAAGTTGATGTTGATAAGGCAGTAGCTGCTGCAAAGAGTGCT
TTTAAATTGGGTTCACCATGGAGACGTATGGATGCTAGTGAACGAGGTAATTTGCTTTTT
AAACTTGCTGACTTGATGGAGAGAGATCGCGTTTATCTTGCTAGTTTAGAAACTCTTGAT
AATGGCAAACCTTATGCAATGAGTTACAATGTTGACCTACCAATGGCAATCAAAAATCTT
CGTTATTATGCCGGTTGGGCAGATAAGAACCATGGAAAAGTTATTCCAATGGATGGAGAG
TTCTTTGCTTATACTCGACATGAACCAGTAAATATAACATTTAACTAAATATCTCTTGCA
TATTAATCATTTATTCTATCAAAGGTTGGTGTATGTGGGCAGATTATACCATGGAATTTT
CCTATTTTGATGGCTGCATGGAAATTGGGACCAGCACTCGCTACCGGAAACACTATCGTT
TTGAAACCGGCTGAACAAACACCACTTACTGCTTTATACATTGCTCAATTGAGTCGTGAA
GCAGGTTTTTTTAAATATTTATTAGTCGTTCCGGGTTTCGGTGAAACTGGACAACATTTA
GTAAATCATAATGATATTGATAAGATTGCTTTTACTGGTAGTACAGAAGTTGGAAAATTA
ATCAAGGCTGGTGCAGCAAACACACTGAAGAGAACAACACTCGAACTTGGAGGCAAATCA
CCAAATATTATTTTATCGGATGCCGATATGAGTCATGCTGTAGAGACTTCACATTTTGGT
CTTTTCTTCAACATGGGTCAATGTTGTTGTGCAGGTTCAAGAACATTTGTAGAAGACAAG
ATTTATGATGAGTTTGTTGAGAGATCAGCAGAACGTGCAAAACGTAGAACTTTTGGAAAT
CCATTTGACTTATCAACTGAACAAGGTCCACAAATCGATGCAATTCAACAAAATAAAATT
CTTGGTCTAATTGAAACAGGCAAAAAACAAGGAGCAAAACTTGTCGCTGGAGGAAATCCT
GTAAATATGAAAGGATATTTTGTTGAGCCAACTGTTTTTGCTGATGTAAAAGACGATATG
ACAATCGCAAGAGAAGAAATTTTCGGACCTGTTCAACAAATTATTCGTTTTAAGAAGCTT
GATGAAGTGATTGAAAGAGCCAACAATACAGATTATGGTCTTGCAGCTGCAGTCTTTTCA
AAAGATCTTGACAAAGTCAATTATCTTATTCAAGGCATTCGTGCAGGTACAGTCTGGGTG
AATACTTATAATATTTTAGGAGCGCAAGTTCCATTCGGTGGATTTAAAATGAGCGGACAT
GGTCGAGAAAATGCGGAATATGGATTGCAGAATTATACAGAAGTCAAGAGCGTTATCATG
CGCATACCACAGAAAAATTCATAA
>g9968.t12 Gene=g9968 Length=324
MAAWKLGPALATGNTIVLKPAEQTPLTALYIAQLSREAGFFKYLLVVPGFGETGQHLVNH
NDIDKIAFTGSTEVGKLIKAGAANTLKRTTLELGGKSPNIILSDADMSHAVETSHFGLFF
NMGQCCCAGSRTFVEDKIYDEFVERSAERAKRRTFGNPFDLSTEQGPQIDAIQQNKILGL
IETGKKQGAKLVAGGNPVNMKGYFVEPTVFADVKDDMTIAREEIFGPVQQIIRFKKLDEV
IERANNTDYGLAAAVFSKDLDKVNYLIQGIRAGTVWVNTYNILGAQVPFGGFKMSGHGRE
NAEYGLQNYTEVKSVIMRIPQKNS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9968.t12 | Gene3D | G3DSA:3.40.605.10 | Aldehyde Dehydrogenase; Chain A | 1 | 94 | 2.7E-35 |
| 8 | g9968.t12 | Gene3D | G3DSA:3.40.309.10 | Aldehyde Dehydrogenase; Chain A | 95 | 323 | 7.0E-85 |
| 2 | g9968.t12 | PANTHER | PTHR11699:SF274 | DEHYDROGENASE, PUTATIVE-RELATED | 1 | 323 | 5.2E-150 |
| 3 | g9968.t12 | PANTHER | PTHR11699 | ALDEHYDE DEHYDROGENASE-RELATED | 1 | 323 | 5.2E-150 |
| 1 | g9968.t12 | Pfam | PF00171 | Aldehyde dehydrogenase family | 1 | 315 | 2.5E-124 |
| 6 | g9968.t12 | ProSitePatterns | PS00687 | Aldehyde dehydrogenases glutamic acid active site. | 91 | 98 | - |
| 5 | g9968.t12 | ProSitePatterns | PS00070 | Aldehyde dehydrogenases cysteine active site. | 119 | 130 | - |
| 4 | g9968.t12 | SUPERFAMILY | SSF53720 | ALDH-like | 1 | 320 | 2.23E-117 |
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.
