General information for g16545.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Aldehyde dehydrogenase family 3 member B1.
Parent gene
- The parent gene g16545 is located on chr_4: 9883580..9889051 (- 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 | g16545 | g16545.t2 | isoform | g16545.t2 | 9878915 | 9884599 |
| chr_4 | g16545 | g16545.t2 | exon | g16545.t2.exon1 | 9878915 | 9879071 |
| chr_4 | g16545 | g16545.t2 | cds | g16545.t2.CDS1 | 9878915 | 9879071 |
| chr_4 | g16545 | g16545.t2 | exon | g16545.t2.exon2 | 9879135 | 9879265 |
| chr_4 | g16545 | g16545.t2 | cds | g16545.t2.CDS2 | 9879135 | 9879265 |
| chr_4 | g16545 | g16545.t2 | exon | g16545.t2.exon3 | 9879322 | 9879637 |
| chr_4 | g16545 | g16545.t2 | cds | g16545.t2.CDS3 | 9879322 | 9879637 |
| chr_4 | g16545 | g16545.t2 | exon | g16545.t2.exon4 | 9879705 | 9879945 |
| chr_4 | g16545 | g16545.t2 | cds | g16545.t2.CDS4 | 9879705 | 9879945 |
| chr_4 | g16545 | g16545.t2 | exon | g16545.t2.exon5 | 9880006 | 9880159 |
| chr_4 | g16545 | g16545.t2 | cds | g16545.t2.CDS5 | 9880006 | 9880159 |
| chr_4 | g16545 | g16545.t2 | exon | g16545.t2.exon6 | 9880376 | 9880521 |
| chr_4 | g16545 | g16545.t2 | cds | g16545.t2.CDS6 | 9880376 | 9880521 |
| chr_4 | g16545 | g16545.t2 | exon | g16545.t2.exon7 | 9880692 | 9880767 |
| chr_4 | g16545 | g16545.t2 | cds | g16545.t2.CDS7 | 9880692 | 9880767 |
| chr_4 | g16545 | g16545.t2 | exon | g16545.t2.exon8 | 9881320 | 9881419 |
| chr_4 | g16545 | g16545.t2 | cds | g16545.t2.CDS8 | 9881320 | 9881419 |
| chr_4 | g16545 | g16545.t2 | exon | g16545.t2.exon9 | 9881479 | 9881708 |
| chr_4 | g16545 | g16545.t2 | cds | g16545.t2.CDS9 | 9881479 | 9881708 |
| chr_4 | g16545 | g16545.t2 | exon | g16545.t2.exon10 | 9884561 | 9884599 |
| chr_4 | g16545 | g16545.t2 | cds | g16545.t2.CDS10 | 9884561 | 9884599 |
| chr_4 | g16545 | g16545.t2 | TSS | g16545.t2 | NA | NA |
| chr_4 | g16545 | g16545.t2 | TTS | g16545.t2 | NA | NA |
Sequences
>g16545.t2 Gene=g16545 Length=1590
ATGCTGAGAAATCGAAAAGATGGAAAATCAACGCTGGAAACCAGCGATATCAAGCGGGAA
TTTCCCTTTGATTTGCTTTCAAATCAAACGAAGAATTTGATAGATTTTGAGATGGATGGC
TACGAGAACATTTTAGGTCAATTGCGTGCAACATTTCGAAGTGGAAAGACAAAAGATTTA
AAATACAGAAAGAAACAATTGGAAGCTTTGTTGAGATTGTATGAAGAAAATCGTGAAGAA
ATTATCAATGCTTTGGCAGCTGATTTGAGACGGCCAAGACAAGAAGCAATTGTATTTGAA
ATTGATGTAATGACAAATGAACTGCTTGGACTGATAAATAATCTTGATGAATATGCAGCA
CCGATTAAACCTGATAAAGGAGTCGCAAACATGTTTGACAAAGTGACAATTTTAAAAGAG
CCTTTTGGTGTTGTTTTAGTTATTGGTGCCTGGAATTATCCATTACAACTTTTACTTGTG
CCTGTCGCTGGAGCAATCGCAGCTGGAAATTGTGTCGTTCTCAAACCAAGTGAAATTTCA
GTTCATTGCTCGAGATTCATTGCTGAAACCTTTCCAAAGTATTTAGATAGTGATGCCTAT
CAAGTAATAAGTGGAGGAATTGAAGAAACAACATCACTTTTAAAACATCAATTTGATTAT
ATTTTTTACACTGGATCAAATCGTGTTGGTCAAATTGTTCATGCAGCAGCTAATAAATAT
TTAACACCAACTACACTCGAATTAGGCGGAAAATCTCCATGTTACATTGATGACACAGTT
GATCTCAATAGAGCTGCAAAAAGAATTCTTTGGGGAAAAAATAGCAATGTTGGACAGACT
TGTATTGCACCTGATTACATCATTTGTACCAAAGAAATTGAAAAAAAATTTATCGAAGAG
TCAAGAAATGTGATTAAAGAATGGTATGGTGATGATGTACAACAAAGTCCTGATTATGGT
AGAATTGCAACTGATGGAAATTTCAAACGTCTCGTGACATTTATGAATTGTGGAACAATA
GCTTTAGGAGGAAAATTTGATGCATCTGATCGATTTATAGAACCAACAATTCTTACAGAT
GTTAGTCATGATGATCCAGTGATGAGAGAAGAAATTTTTGGACCAATTTTGCCAATTGTC
AATATTCATGACATTCATGATGCAATTGATTTTATTAATGCTCGTGATAAGCCATTATCA
CTTTATATTTTTACAAGTAACAACAAAGATAGAGATTTAATCATTGATAGCACTTCAGCT
GGTGCAGTTTGTGTTAATGATACTGTTGTGCATTTTGTTTGTAATTTACCATTTGGTGGT
GTTGGAGCAAGTGGCATGGGAGCTTATCATGGAAAATATAATTTTGATACTTTTACACAT
GAAAAAGGATGTTTAGAGAAATCAATGGATTATGTGTCTGAAAAATTATCTGATGCACGT
TATCCACCATATACTGATAATAAAGCATCATATCTTTCATTTATGATGAAAAAAAGAAAA
TTTTGGAAAATTCCATTTTTCTCTCATATTCTTGCCTTTGCTTTTGGAGCAGCTGCAGCA
TATTATTTGAAGAAGTATTACTTTAACTAA
>g16545.t2 Gene=g16545 Length=529
MLRNRKDGKSTLETSDIKREFPFDLLSNQTKNLIDFEMDGYENILGQLRATFRSGKTKDL
KYRKKQLEALLRLYEENREEIINALAADLRRPRQEAIVFEIDVMTNELLGLINNLDEYAA
PIKPDKGVANMFDKVTILKEPFGVVLVIGAWNYPLQLLLVPVAGAIAAGNCVVLKPSEIS
VHCSRFIAETFPKYLDSDAYQVISGGIEETTSLLKHQFDYIFYTGSNRVGQIVHAAANKY
LTPTTLELGGKSPCYIDDTVDLNRAAKRILWGKNSNVGQTCIAPDYIICTKEIEKKFIEE
SRNVIKEWYGDDVQQSPDYGRIATDGNFKRLVTFMNCGTIALGGKFDASDRFIEPTILTD
VSHDDPVMREEIFGPILPIVNIHDIHDAIDFINARDKPLSLYIFTSNNKDRDLIIDSTSA
GAVCVNDTVVHFVCNLPFGGVGASGMGAYHGKYNFDTFTHEKGCLEKSMDYVSEKLSDAR
YPPYTDNKASYLSFMMKKRKFWKIPFFSHILAFAFGAAAAYYLKKYYFN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g16545.t2 | Coils | Coil | Coil | 57 | 84 | - |
| 5 | g16545.t2 | Gene3D | G3DSA:3.40.605.10 | Aldehyde Dehydrogenase; Chain A | 49 | 464 | 1.8E-170 |
| 6 | g16545.t2 | Gene3D | G3DSA:3.40.309.10 | Aldehyde Dehydrogenase; Chain A | 250 | 444 | 1.8E-170 |
| 2 | g16545.t2 | PANTHER | PTHR43570:SF29 | ALDEHYDE DEHYDROGENASE TYPE III, ISOFORM Q | 36 | 526 | 7.8E-230 |
| 3 | g16545.t2 | PANTHER | PTHR43570 | ALDEHYDE DEHYDROGENASE | 36 | 526 | 7.8E-230 |
| 11 | g16545.t2 | PIRSF | PIRSF036492 | ALDH | 24 | 509 | 3.6E-192 |
| 1 | g16545.t2 | Pfam | PF00171 | Aldehyde dehydrogenase family | 49 | 462 | 1.8E-83 |
| 8 | g16545.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 503 | - |
| 10 | g16545.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 504 | 523 | - |
| 9 | g16545.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 524 | 529 | - |
| 13 | g16545.t2 | ProSitePatterns | PS00687 | Aldehyde dehydrogenases glutamic acid active site. | 246 | 253 | - |
| 4 | g16545.t2 | SUPERFAMILY | SSF53720 | ALDH-like | 45 | 468 | 1.17E-118 |
| 12 | g16545.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 501 | 523 | - |
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.
