General information for g16094.t17
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Aldehyde dehydrogenase family 3 member A2.
Parent gene
- The parent gene g16094 is located on chr_4: 8135015..8141389 (+ 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_4 | g16094 | g16094.t17 | TSS | g16094.t17 | 8132276 | 8132276 |
| chr_4 | g16094 | g16094.t17 | isoform | g16094.t17 | 8132314 | 8141389 |
| chr_4 | g16094 | g16094.t17 | exon | g16094.t17.exon1 | 8132314 | 8132472 |
| chr_4 | g16094 | g16094.t17 | exon | g16094.t17.exon2 | 8132561 | 8132736 |
| chr_4 | g16094 | g16094.t17 | cds | g16094.t17.CDS1 | 8132655 | 8132736 |
| chr_4 | g16094 | g16094.t17 | exon | g16094.t17.exon3 | 8132864 | 8133009 |
| chr_4 | g16094 | g16094.t17 | cds | g16094.t17.CDS2 | 8132864 | 8133009 |
| chr_4 | g16094 | g16094.t17 | exon | g16094.t17.exon4 | 8133065 | 8133146 |
| chr_4 | g16094 | g16094.t17 | cds | g16094.t17.CDS3 | 8133065 | 8133146 |
| chr_4 | g16094 | g16094.t17 | exon | g16094.t17.exon5 | 8133201 | 8133272 |
| chr_4 | g16094 | g16094.t17 | cds | g16094.t17.CDS4 | 8133201 | 8133272 |
| chr_4 | g16094 | g16094.t17 | exon | g16094.t17.exon6 | 8133334 | 8133357 |
| chr_4 | g16094 | g16094.t17 | cds | g16094.t17.CDS5 | 8133334 | 8133357 |
| chr_4 | g16094 | g16094.t17 | exon | g16094.t17.exon7 | 8133427 | 8133643 |
| chr_4 | g16094 | g16094.t17 | cds | g16094.t17.CDS6 | 8133427 | 8133643 |
| chr_4 | g16094 | g16094.t17 | exon | g16094.t17.exon8 | 8133745 | 8133942 |
| chr_4 | g16094 | g16094.t17 | cds | g16094.t17.CDS7 | 8133745 | 8133942 |
| chr_4 | g16094 | g16094.t17 | exon | g16094.t17.exon9 | 8133997 | 8134121 |
| chr_4 | g16094 | g16094.t17 | cds | g16094.t17.CDS8 | 8133997 | 8134121 |
| chr_4 | g16094 | g16094.t17 | exon | g16094.t17.exon10 | 8134905 | 8134953 |
| chr_4 | g16094 | g16094.t17 | cds | g16094.t17.CDS9 | 8134905 | 8134953 |
| chr_4 | g16094 | g16094.t17 | exon | g16094.t17.exon11 | 8135015 | 8135092 |
| chr_4 | g16094 | g16094.t17 | cds | g16094.t17.CDS10 | 8135015 | 8135092 |
| chr_4 | g16094 | g16094.t17 | exon | g16094.t17.exon12 | 8135147 | 8135300 |
| chr_4 | g16094 | g16094.t17 | cds | g16094.t17.CDS11 | 8135147 | 8135300 |
| chr_4 | g16094 | g16094.t17 | exon | g16094.t17.exon13 | 8135368 | 8135505 |
| chr_4 | g16094 | g16094.t17 | cds | g16094.t17.CDS12 | 8135368 | 8135379 |
| chr_4 | g16094 | g16094.t17 | TTS | g16094.t17 | 8135519 | 8135519 |
| chr_4 | g16094 | g16094.t17 | exon | g16094.t17.exon14 | 8141357 | 8141389 |
Sequences
>g16094.t17 Gene=g16094 Length=1651
ATGACATACGAGGACTTGATGAGTCGTGCCGCAACGGCATTTCAAAGCGGCAAAACCAAA
GATATTGATTTTAGAAGGAAACAGTTGAACGCATTGTTGCGAATGTATGAAGAGAATAAA
GATGAAATGGCACGCGTTTTGGCTGCTGATTTGAGGTTTACGACCAAAGCAAGAATCCTA
CATTCTTGAAATTGAATTCCTTATAAATGACATCATCACAACAATCAACAGTCTCGATGA
ATGGACGAAGCCAATGAAACCTGAAAAAGGAATTGTCAATATGATGGATGATGTTTTGAT
TTATCCTGATCCTCTTGGTGTTGTTCTAGTCATGGGTGCATGGAATTATCCACTTCAACT
CCCACTTGTTCCTTTTGGTGCTGCAATTGCAGCTGGAAATGTTGCCATATTAAAACCTAG
TGAAATTTCAGTCAATTGTGCAAATTTCATTGCTGAAAATATTCCTAAATATTTGGATAA
TGAATGTTATCATGTTGTATGTGGTGGAGTTCAAGAAACTACTGAACTTTTGAAGCATAA
ATTTGATTATATTTTTTATACTGGCTCTGGACGTGTTGGAAAAATTGTTTATGAAGCAGC
AGCAAAACATTTAACACCGGTGACATTAGAATTGGGAGGAAAGTCACCTTGCTATATTGA
TAACACAGTTGACATTTCAAAAGCAACACGACGAGTTTTATGGGGAAAATTTATTAATGC
TGGTCAAACATGCATTGCACCTGATTATATTTTGTGTACCAAAGAAATTCAAGATAAGTT
TGTTAAAGAGGCTAAAGTTGTACTTAAAGAATGGTATGGTGATGACATCAAAAAAAGTCC
CGACTTTTGTAGAATTGTAAATCAAGTTAATTTTCAACGTCTCACAAAGCTATTGAGCAG
TGGAACAATTGCCGTTGGTGGTAAAACCGATGCAGATGAAAGATTTATCGAACCAACAAT
CATTGTTGATGCAAAATCAACTGATGCTGTCATGCAAGAAGAAATTTTTGGTCCCATTTT
ACCTATTGTTAATATCAATAATGCATTTGAAGCCATAAAATTCATCACAGCAAGAGATAA
ACCATTGGCACTTTATATATTTTCAAACAACACAAATGATCGTCAAACAATTATTGAAAA
TACGTCATCAGGTGGTGTTTGTGTCAATGACACTATTATGCATCTTGCTGTTGATACAAT
GCCTTTTGGTGGTGTTGGACCAAGTGGTATGGGAGGTTATCATGGAAAGTACTCATTTGA
TACATTTTCGCATAAAAAATCTTGCTTGGTAAAGAAAATTGACACAATCAGTGAGAAACT
GTCAAATGCACGCTATCCACCATATAGTGACAAAAAGATCAACTATTTGACTTTTCTTAC
TAAAAAACGTAAAGGCTTTTCAATTCCTTACTTACCACAGTTAGTTTTGCTTGGAGTTGG
TGTTGCTGCAACGATTTTCGTTCAACGCATTTTGCCTGAATGTGAACAGTAGAAATTGAC
AAAATTAAAATTTTCATTTTCTGTTTTTGGTGTGTGTTTATGGAGTGGATTTTAGAAGCT
GATGATTTGAAGCTGAATTTTTTTATTGTGATTTTTAATGTGCACGCTTAAATAAAAAGT
TACATGGGAAAATTATCAATATTTACTTACT
>g16094.t17 Gene=g16094 Length=412
MKPEKGIVNMMDDVLIYPDPLGVVLVMGAWNYPLQLPLVPFGAAIAAGNVAILKPSEISV
NCANFIAENIPKYLDNECYHVVCGGVQETTELLKHKFDYIFYTGSGRVGKIVYEAAAKHL
TPVTLELGGKSPCYIDNTVDISKATRRVLWGKFINAGQTCIAPDYILCTKEIQDKFVKEA
KVVLKEWYGDDIKKSPDFCRIVNQVNFQRLTKLLSSGTIAVGGKTDADERFIEPTIIVDA
KSTDAVMQEEIFGPILPIVNINNAFEAIKFITARDKPLALYIFSNNTNDRQTIIENTSSG
GVCVNDTIMHLAVDTMPFGGVGPSGMGGYHGKYSFDTFSHKKSCLVKKIDTISEKLSNAR
YPPYSDKKINYLTFLTKKRKGFSIPYLPQLVLLGVGVAATIFVQRILPECEQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g16094.t17 | Gene3D | G3DSA:3.40.605.10 | Aldehyde Dehydrogenase; Chain A | 4 | 344 | 2.0E-153 |
| 6 | g16094.t17 | Gene3D | G3DSA:3.40.309.10 | Aldehyde Dehydrogenase; Chain A | 129 | 324 | 2.0E-153 |
| 2 | g16094.t17 | PANTHER | PTHR43570:SF29 | ALDEHYDE DEHYDROGENASE TYPE III, ISOFORM Q | 2 | 407 | 1.3E-209 |
| 3 | g16094.t17 | PANTHER | PTHR43570 | ALDEHYDE DEHYDROGENASE | 2 | 407 | 1.3E-209 |
| 10 | g16094.t17 | PIRSF | PIRSF036492 | ALDH | 1 | 388 | 2.5E-177 |
| 1 | g16094.t17 | Pfam | PF00171 | Aldehyde dehydrogenase family | 14 | 343 | 1.0E-73 |
| 7 | g16094.t17 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 385 | - |
| 9 | g16094.t17 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 386 | 407 | - |
| 8 | g16094.t17 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 408 | 412 | - |
| 13 | g16094.t17 | ProSitePatterns | PS00687 | Aldehyde dehydrogenases glutamic acid active site. | 125 | 132 | - |
| 12 | g16094.t17 | ProSitePatterns | PS00070 | Aldehyde dehydrogenases cysteine active site. | 153 | 164 | - |
| 4 | g16094.t17 | SUPERFAMILY | SSF53720 | ALDH-like | 13 | 347 | 2.23E-103 |
| 11 | g16094.t17 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 381 | 403 | - |
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
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.
