General information for g16094.t3
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.t3 | isoform | g16094.t3 | 8129359 | 8135379 |
| chr_4 | g16094 | g16094.t3 | exon | g16094.t3.exon1 | 8129359 | 8129483 |
| chr_4 | g16094 | g16094.t3 | TSS | g16094.t3 | 8129395 | 8129395 |
| chr_4 | g16094 | g16094.t3 | exon | g16094.t3.exon2 | 8132277 | 8132468 |
| chr_4 | g16094 | g16094.t3 | cds | g16094.t3.CDS1 | 8132314 | 8132468 |
| chr_4 | g16094 | g16094.t3 | exon | g16094.t3.exon3 | 8132561 | 8132736 |
| chr_4 | g16094 | g16094.t3 | cds | g16094.t3.CDS2 | 8132561 | 8132736 |
| chr_4 | g16094 | g16094.t3 | exon | g16094.t3.exon4 | 8132864 | 8133009 |
| chr_4 | g16094 | g16094.t3 | cds | g16094.t3.CDS3 | 8132864 | 8133009 |
| chr_4 | g16094 | g16094.t3 | exon | g16094.t3.exon5 | 8133065 | 8133146 |
| chr_4 | g16094 | g16094.t3 | cds | g16094.t3.CDS4 | 8133065 | 8133146 |
| chr_4 | g16094 | g16094.t3 | exon | g16094.t3.exon6 | 8133201 | 8133272 |
| chr_4 | g16094 | g16094.t3 | cds | g16094.t3.CDS5 | 8133201 | 8133272 |
| chr_4 | g16094 | g16094.t3 | exon | g16094.t3.exon7 | 8133334 | 8133357 |
| chr_4 | g16094 | g16094.t3 | cds | g16094.t3.CDS6 | 8133334 | 8133357 |
| chr_4 | g16094 | g16094.t3 | exon | g16094.t3.exon8 | 8133427 | 8133643 |
| chr_4 | g16094 | g16094.t3 | cds | g16094.t3.CDS7 | 8133427 | 8133643 |
| chr_4 | g16094 | g16094.t3 | exon | g16094.t3.exon9 | 8133745 | 8133942 |
| chr_4 | g16094 | g16094.t3 | cds | g16094.t3.CDS8 | 8133745 | 8133942 |
| chr_4 | g16094 | g16094.t3 | exon | g16094.t3.exon10 | 8133997 | 8134121 |
| chr_4 | g16094 | g16094.t3 | cds | g16094.t3.CDS9 | 8133997 | 8134121 |
| chr_4 | g16094 | g16094.t3 | exon | g16094.t3.exon11 | 8134905 | 8134953 |
| chr_4 | g16094 | g16094.t3 | cds | g16094.t3.CDS10 | 8134905 | 8134953 |
| chr_4 | g16094 | g16094.t3 | exon | g16094.t3.exon12 | 8135015 | 8135092 |
| chr_4 | g16094 | g16094.t3 | cds | g16094.t3.CDS11 | 8135015 | 8135092 |
| chr_4 | g16094 | g16094.t3 | exon | g16094.t3.exon13 | 8135147 | 8135379 |
| chr_4 | g16094 | g16094.t3 | cds | g16094.t3.CDS12 | 8135147 | 8135372 |
| chr_4 | g16094 | g16094.t3 | TTS | g16094.t3 | 8135519 | 8135519 |
Sequences
>g16094.t3 Gene=g16094 Length=1717
ATAACAAAAATCATATGTTCATGAATGAAATGCGTAAAATTTTCTCTATCGATTTTCTCA
ATGAAAGTGAAATTGAAAATAAAATTTTAAATTTATTTCGTGTTCTTAAAACTCAATCTA
GTCAGTTAAAGTACAGCTAATTGAACCAAAAAAAAAAGAAACATGACATACGAGGACTTG
ATGAGTCGTGCCGCAACGGCATTTCAAAGCGGCAAAACCAAAGATATTGATTTTAGAAGG
AAACAGTTGAACGCATTGTTGCGAATGTATGAAGAGAATAAAGATGAAATGGCACGCGTT
TTGGCTGCTGATTTGAGACGACCAAAGCAAGAATCCTACATTCTTGAAATTGAATTCCTT
ATAAATGACATCATCACAACAATCAACAGTCTCGATGAATGGACGAAGCCAATGAAACCT
GAAAAAGGAATTGTCAATATGATGGATGATGTTTTGATTTATCCTGATCCTCTTGGTGTT
GTTCTAGTCATGGGTGCATGGAATTATCCACTTCAACTCCCACTTGTTCCTTTTGGTGCT
GCAATTGCAGCTGGAAATGTTGCCATATTAAAACCTAGTGAAATTTCAGTCAATTGTGCA
AATTTCATTGCTGAAAATATTCCTAAATATTTGGATAATGAATGTTATCATGTTGTATGT
GGTGGAGTTCAAGAAACTACTGAACTTTTGAAGCATAAATTTGATTATATTTTTTATACT
GGCTCTGGACGTGTTGGAAAAATTGTTTATGAAGCAGCAGCAAAACATTTAACACCGGTG
ACATTAGAATTGGGAGGAAAGTCACCTTGCTATATTGATAACACAGTTGACATTTCAAAA
GCAACACGACGAGTTTTATGGGGAAAATTTATTAATGCTGGTCAAACATGCATTGCACCT
GATTATATTTTGTGTACCAAAGAAATTCAAGATAAGTTTGTTAAAGAGGCTAAAGTTGTA
CTTAAAGAATGGTATGGTGATGACATCAAAAAAAGTCCCGACTTTTGTAGAATTGTAAAT
CAAGTTAATTTTCAACGTCTCACAAAGCTATTGAGCAGTGGAACAATTGCCGTTGGTGGT
AAAACCGATGCAGATGAAAGATTTATCGAACCAACAATCATTGTTGATGCAAAATCAACT
GATGCTGTCATGCAAGAAGAAATTTTTGGTCCCATTTTACCTATTGTTAATATCAATAAT
GCATTTGAAGCCATAAAATTCATCACAGCAAGAGATAAACCATTGGCACTTTATATATTT
TCAAACAACACAAATGATCGTCAAACAATTATTGAAAATACGTCATCAGGTGGTGTTTGT
GTCAATGACACTATTATGCATCTTGCTGTTGATACAATGCCTTTTGGTGGTGTTGGACCA
AGTGGTATGGGAGGTTATCATGGAAAGTACTCATTTGATACATTTTCGCATAAAAAATCT
TGCTTGGTAAAGAAAATTGACACAATCAGTGAGAAACTGTCAAATGCACGCTATCCACCA
TATAGTGACAAAAAGATCAACTATTTGACTTTTCTTACTAAAAAACGTAAAGGCTTTTCA
ATTCCTTACTTACCACAGTTAGTTTTGCTTGGAGTTGGTGTTGCTGCAACGATTTTCGTT
CAACGCATTTTGCCTGAAGTATTAAAGAATAAGAAATTTGAAATATTTAGTATTGCATTA
ACAGCTATATTCAAACTTTTTACAGTGTGAACAGTAG
>g16094.t3 Gene=g16094 Length=515
MTYEDLMSRAATAFQSGKTKDIDFRRKQLNALLRMYEENKDEMARVLAADLRRPKQESYI
LEIEFLINDIITTINSLDEWTKPMKPEKGIVNMMDDVLIYPDPLGVVLVMGAWNYPLQLP
LVPFGAAIAAGNVAILKPSEISVNCANFIAENIPKYLDNECYHVVCGGVQETTELLKHKF
DYIFYTGSGRVGKIVYEAAAKHLTPVTLELGGKSPCYIDNTVDISKATRRVLWGKFINAG
QTCIAPDYILCTKEIQDKFVKEAKVVLKEWYGDDIKKSPDFCRIVNQVNFQRLTKLLSSG
TIAVGGKTDADERFIEPTIIVDAKSTDAVMQEEIFGPILPIVNINNAFEAIKFITARDKP
LALYIFSNNTNDRQTIIENTSSGGVCVNDTIMHLAVDTMPFGGVGPSGMGGYHGKYSFDT
FSHKKSCLVKKIDTISEKLSNARYPPYSDKKINYLTFLTKKRKGFSIPYLPQLVLLGVGV
AATIFVQRILPEVLKNKKFEIFSIALTAIFKLFTV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g16094.t3 | CDD | cd07132 | ALDH_F3AB | 4 | 448 | 0.0 |
| 7 | g16094.t3 | Coils | Coil | Coil | 26 | 46 | - |
| 5 | g16094.t3 | Gene3D | G3DSA:3.40.605.10 | Aldehyde Dehydrogenase; Chain A | 13 | 427 | 4.4E-176 |
| 6 | g16094.t3 | Gene3D | G3DSA:3.40.309.10 | Aldehyde Dehydrogenase; Chain A | 212 | 407 | 4.4E-176 |
| 2 | g16094.t3 | PANTHER | PTHR43570:SF29 | ALDEHYDE DEHYDROGENASE TYPE III, ISOFORM Q | 4 | 490 | 2.3E-243 |
| 3 | g16094.t3 | PANTHER | PTHR43570 | ALDEHYDE DEHYDROGENASE | 4 | 490 | 2.3E-243 |
| 11 | g16094.t3 | PIRSF | PIRSF036492 | ALDH | 1 | 471 | 1.0E-200 |
| 1 | g16094.t3 | Pfam | PF00171 | Aldehyde dehydrogenase family | 3 | 426 | 2.7E-81 |
| 9 | g16094.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 468 | - |
| 10 | g16094.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 469 | 490 | - |
| 8 | g16094.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 491 | 515 | - |
| 15 | g16094.t3 | ProSitePatterns | PS00687 | Aldehyde dehydrogenases glutamic acid active site. | 208 | 215 | - |
| 14 | g16094.t3 | ProSitePatterns | PS00070 | Aldehyde dehydrogenases cysteine active site. | 236 | 247 | - |
| 4 | g16094.t3 | SUPERFAMILY | SSF53720 | ALDH-like | 5 | 430 | 4.84E-118 |
| 13 | g16094.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 464 | 486 | - |
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 transcript has been annotated with K00129 (aldehyde dehydrogenase (NAD(P)+))
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.
