General information for g16545.t4
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.t4 | isoform | g16545.t4 | 9878915 | 9886762 |
| chr_4 | g16545 | g16545.t4 | exon | g16545.t4.exon1 | 9878915 | 9879071 |
| chr_4 | g16545 | g16545.t4 | cds | g16545.t4.CDS1 | 9878915 | 9879071 |
| chr_4 | g16545 | g16545.t4 | exon | g16545.t4.exon2 | 9879135 | 9879265 |
| chr_4 | g16545 | g16545.t4 | cds | g16545.t4.CDS2 | 9879135 | 9879265 |
| chr_4 | g16545 | g16545.t4 | exon | g16545.t4.exon3 | 9879337 | 9879637 |
| chr_4 | g16545 | g16545.t4 | cds | g16545.t4.CDS3 | 9879337 | 9879637 |
| chr_4 | g16545 | g16545.t4 | exon | g16545.t4.exon4 | 9879705 | 9879945 |
| chr_4 | g16545 | g16545.t4 | cds | g16545.t4.CDS4 | 9879705 | 9879945 |
| chr_4 | g16545 | g16545.t4 | exon | g16545.t4.exon5 | 9880006 | 9880159 |
| chr_4 | g16545 | g16545.t4 | cds | g16545.t4.CDS5 | 9880006 | 9880159 |
| chr_4 | g16545 | g16545.t4 | exon | g16545.t4.exon6 | 9880376 | 9880521 |
| chr_4 | g16545 | g16545.t4 | cds | g16545.t4.CDS6 | 9880376 | 9880521 |
| chr_4 | g16545 | g16545.t4 | exon | g16545.t4.exon7 | 9880692 | 9880767 |
| chr_4 | g16545 | g16545.t4 | cds | g16545.t4.CDS7 | 9880692 | 9880767 |
| chr_4 | g16545 | g16545.t4 | exon | g16545.t4.exon8 | 9881320 | 9881419 |
| chr_4 | g16545 | g16545.t4 | cds | g16545.t4.CDS8 | 9881320 | 9881419 |
| chr_4 | g16545 | g16545.t4 | exon | g16545.t4.exon9 | 9881479 | 9881708 |
| chr_4 | g16545 | g16545.t4 | cds | g16545.t4.CDS9 | 9881479 | 9881708 |
| chr_4 | g16545 | g16545.t4 | exon | g16545.t4.exon10 | 9886715 | 9886762 |
| chr_4 | g16545 | g16545.t4 | cds | g16545.t4.CDS10 | 9886715 | 9886762 |
| chr_4 | g16545 | g16545.t4 | TSS | g16545.t4 | 9886878 | 9886878 |
| chr_4 | g16545 | g16545.t4 | TTS | g16545.t4 | NA | NA |
Sequences
>g16545.t4 Gene=g16545 Length=1584
ATGGAAGACTGGAATTCTTGGGATGATAATGGTGATGCGCCATTGCTGACCAGCGATATC
AAGCGGGAATTTCCCTTTGATTTGCTTTCAAATCAAACGAAGAATTTGATAGATTTTGAG
ATGGATGGCTACGAGAACATTTTAGGTCAATTGCGTGCAACATTTCGAAGTGGAAAGACA
AAAGATTTAAAATACAGAAAGAAACAATTGGAAGCTTTGTTGAGATTGTATGAAGAAAAT
CGTGAAGAAATTATCAATGCTTTGGCAGCTGATTTGAGACGGCCAAGACAAGAAGCAATT
GTATTTGAAATTGATGTAATGACAAATGAACTGCTTGGACTGATAAATAATCTTGATGAA
TATGCAGCACCGATTAAACCTGATAAAGGAGTCGCAAACATGTTTGACAAAGTGACAATT
TTAAAAGAGCCTTTTGGTGTTGTTTTAGTTATTGGTGCCTGGAATTATCCATTACAACTT
TTACTTGTGCCTGTCGCTGGAGCAATCGCAGCTGGAAATTGTGTCGTTCTCAAACCAAGT
GAAATTTCAGTTCATTGCTCGAGATTCATTGCTGAAACCTTTCCAAAGTATTTAGATAGT
GATGCCTATCAAGTAATAAGTGGAGGAATTGAAGAAACAACATCACTTTTAAAACATCAA
TTTGATTATATTTTTTACACTGGATCAAATCGTGTTGGTCAAATTGTTCATGCAGCAGCT
AATAAATATTTAACACCAACTACACTCGAATTAGGCGGAAAATCTCCATGTTACATTGAT
GACACAGTTGATCTCAATAGAGCTGCAAAAAGAATTCTTTGGGGAAAAAATAGCAATGTT
GGACAGACTTGTATTGCACCTGATTACATCATTTGTACCAAAGAAATTGAAAAAAAATTT
ATCGAAGAGTCAAGAAATGTGATTAAAGAATGGTATGGTGATGATGTACAACAAAGTCCT
GATTATGGTAGAATTGCAACTGATGGAAATTTCAAACGTCTCGTGACATTTATGAATTGT
GGAACAATAGCTTTAGGAGGAAAATTTGATGCATCTGATCGATTTATAGAACCAACAATT
CTTACAGATGTTAGTCATGATGATCCAGTGATGAGAGAAGAAATTTTTGGACCAATTTTG
CCAATTGTCAATATTCATGACATTCATGATGCAATTGATTTTATTAATGCTCGTGATAAG
CCATTATCACTTTATATTTTTACAAGTAACAACAAAGATAGAGATTTAATCATTGATAGC
ACTTCAGCTGGTGCAGTTTGTGTTAATGATACTGTTAATTTACCATTTGGTGGTGTTGGA
GCAAGTGGCATGGGAGCTTATCATGGAAAATATAATTTTGATACTTTTACACATGAAAAA
GGATGTTTAGAGAAATCAATGGATTATGTGTCTGAAAAATTATCTGATGCACGTTATCCA
CCATATACTGATAATAAAGCATCATATCTTTCATTTATGATGAAAAAAAGAAAATTTTGG
AAAATTCCATTTTTCTCTCATATTCTTGCCTTTGCTTTTGGAGCAGCTGCAGCATATTAT
TTGAAGAAGTATTACTTTAACTAA
>g16545.t4 Gene=g16545 Length=527
MEDWNSWDDNGDAPLLTSDIKREFPFDLLSNQTKNLIDFEMDGYENILGQLRATFRSGKT
KDLKYRKKQLEALLRLYEENREEIINALAADLRRPRQEAIVFEIDVMTNELLGLINNLDE
YAAPIKPDKGVANMFDKVTILKEPFGVVLVIGAWNYPLQLLLVPVAGAIAAGNCVVLKPS
EISVHCSRFIAETFPKYLDSDAYQVISGGIEETTSLLKHQFDYIFYTGSNRVGQIVHAAA
NKYLTPTTLELGGKSPCYIDDTVDLNRAAKRILWGKNSNVGQTCIAPDYIICTKEIEKKF
IEESRNVIKEWYGDDVQQSPDYGRIATDGNFKRLVTFMNCGTIALGGKFDASDRFIEPTI
LTDVSHDDPVMREEIFGPILPIVNIHDIHDAIDFINARDKPLSLYIFTSNNKDRDLIIDS
TSAGAVCVNDTVNLPFGGVGASGMGAYHGKYNFDTFTHEKGCLEKSMDYVSEKLSDARYP
PYTDNKASYLSFMMKKRKFWKIPFFSHILAFAFGAAAAYYLKKYYFN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g16545.t4 | Coils | Coil | Coil | 60 | 87 | - |
| 5 | g16545.t4 | Gene3D | G3DSA:3.40.605.10 | Aldehyde Dehydrogenase; Chain A | 52 | 462 | 6.9E-167 |
| 6 | g16545.t4 | Gene3D | G3DSA:3.40.309.10 | Aldehyde Dehydrogenase; Chain A | 253 | 442 | 6.9E-167 |
| 2 | g16545.t4 | PANTHER | PTHR43570:SF29 | ALDEHYDE DEHYDROGENASE TYPE III, ISOFORM Q | 39 | 524 | 8.9E-226 |
| 3 | g16545.t4 | PANTHER | PTHR43570 | ALDEHYDE DEHYDROGENASE | 39 | 524 | 8.9E-226 |
| 11 | g16545.t4 | PIRSF | PIRSF036492 | ALDH | 29 | 507 | 9.2E-188 |
| 1 | g16545.t4 | Pfam | PF00171 | Aldehyde dehydrogenase family | 52 | 460 | 1.8E-81 |
| 8 | g16545.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 501 | - |
| 10 | g16545.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 502 | 521 | - |
| 9 | g16545.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 522 | 527 | - |
| 13 | g16545.t4 | ProSitePatterns | PS00687 | Aldehyde dehydrogenases glutamic acid active site. | 249 | 256 | - |
| 4 | g16545.t4 | SUPERFAMILY | SSF53720 | ALDH-like | 48 | 466 | 4.19E-117 |
| 12 | g16545.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 499 | 521 | - |
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.
