General information for g1826.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Succinate-semialdehyde dehydrogenase, mitochondrial.
Parent gene
- The parent gene g1826 is located on chr_3: 13206485..13210007 (- 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_3 | g1826 | g1826.t9 | isoform | g1826.t9 | 13205255 | 13207189 |
| chr_3 | g1826 | g1826.t9 | exon | g1826.t9.exon1 | 13205255 | 13207189 |
| chr_3 | g1826 | g1826.t9 | cds | g1826.t9.CDS1 | 13205471 | 13206403 |
| chr_3 | g1826 | g1826.t9 | TSS | g1826.t9 | 13207183 | 13207183 |
| chr_3 | g1826 | g1826.t9 | TTS | g1826.t9 | NA | NA |
Sequences
>g1826.t9 Gene=g1826 Length=1935
ATGATTAGTCTATCGCAAAGAGTCTTCCAATTTGGAGCAATCAAATTTAATTCTACAAAT
AAGATTCAATTGGTTAGAATGATGCATTCTCTGATTAAAAACCAAGCCTACATTAATGGA
AAGTGGACAAATGCAGCTAACAATAAAACATTTAGTGTAATGAATCCATCAAATCAAGAA
ATAGTTGCACAAGTTCCTGATATGACTAAAATTGATTGTCAAAAAGCAATTGATGCAGCT
AATGATGCATTTTATTCAAAAGAATGGCGTAATGCCACAGCTAAAGATCGATCTACATTA
CTAAAGGTAATAAAAATGACGTAAAAAAGACCTTAATTAAGAAATCAATATATCGGAATT
TTAGAAATGGTTTACACTTTTGGAAGCGAATAAACAAGAAATTGCTCAAATAATGACAAC
TGAGAGTGGCAAACCTATTGCTGAAGCGTTAGGAGAAGTAGCTTACGGAAATTCTTTTGT
TGAATGGTTTGCAGAAGAGGCAAGAAGAATTTATGGTGAAATTGTCCCTTCTCCAGTTGC
CAGCAAACAAATTAAAATTGTACGACAACCTATTGGAGGTAAAGTTTATCAGCAAAAAAA
ATAAGAGAAATTGTTTTTACAACTTTTAATCTTTAGTTGCTGGTCTTATCACACCTTGGA
ATTTTCCACACGCAATGATAACACGAAAAGCTGCTGCTGCATTAGCTGCAGGTTTGCAAA
ACAAATTTATTCTATGAATTCAATTATGCATCAACCAAAGTAATCATTTTAGGTTGCACA
GTTGTAATGCGTCCTGCTGAAGACACACCACTTACTGCTCTTGCTCTTTGTAAATTAGCA
GAAGATGCCGGCTTTCCAAAGGGAGTCATAAATTGCGTAACTTCGAGTCGATCACATGCA
TCCGAAATTGGTGAACTTTTGTGCAAAAGTCCAAAAGTAGCAGGAATTTCATTTACCGGT
TCGACTCAAGTTGGAAAACTTTTATATAAACAATGTGGAGAAGGAGTCAAAAGAATTGGA
TTAGAATTAGGTGGAAATGCGGCATTTATAGTTTTTGAATCTGCTAACATTGATCAAGCT
GTTGCTGGTGCAATGGCATCAAAATTTAGAAATTGTGGTCAAACATGTGTATCATCAAAT
CGATTCCTAGTTCAAGAAAAAATTTTTGATCAATTTGTTGAGAAAATTACTGAACAAGTT
AAAGCACTAAAAATCGGTGATGGTACACAATCTGATGTAAAAATTGGACCATTGATTAAT
GAAGCACAACTTCATAAAGTATCTGCAATGGTTGATGATGCAAAATCAAAAGGTGCTAAA
GTCATATATGGTGGTCGAGCATTATCTGAAATTGGCTCACTTTTTTATGAACCGACAATA
ATTTCAAATATTCAATCAAATATGGATTTGTATAACGAAGAAGTTTTTGGACCAGTAATT
TCACTAATTAAATTTAAAACAGAAGAAGAAGCATTAAAAATCGCAAATAGCACACCTAGA
GGTCTTGCAGGTTATTTCTATAGTCAAGATATAAATCAAATTTTCCGTGTCGAAAGAGAT
CTAGAAGCTGGAATGATTGGAATTAATGAAGGCATCATATCAACAACTGAGGCGCCTTTT
GGTGGAATAAAAGAATCTGGAATTGGTCGAGAAGGTTCAAAACATGGTATCGATGAATAC
GTTGAAATCAAATATATTTGTTATGGAAATTTAAATTAAATATGTAAATGCATTTAAATG
AATTCCCTGTATTATATGATTGTTATTGTGCATATAAAAATTATATAAAATTTAAACAAA
TAATTTTTATTAAGAACGAGTCTTCCACTAATTTAATTTTAAAATAAATGTCAAACACTT
CATGAAAAATTACAATATGACTTTTAAGATAATGATATCTTTATAATATTGTAATCATTG
TTTTATTTGTTTATA
>g1826.t9 Gene=g1826 Length=310
MRPAEDTPLTALALCKLAEDAGFPKGVINCVTSSRSHASEIGELLCKSPKVAGISFTGST
QVGKLLYKQCGEGVKRIGLELGGNAAFIVFESANIDQAVAGAMASKFRNCGQTCVSSNRF
LVQEKIFDQFVEKITEQVKALKIGDGTQSDVKIGPLINEAQLHKVSAMVDDAKSKGAKVI
YGGRALSEIGSLFYEPTIISNIQSNMDLYNEEVFGPVISLIKFKTEEEALKIANSTPRGL
AGYFYSQDINQIFRVERDLEAGMIGINEGIISTTEAPFGGIKESGIGREGSKHGIDEYVE
IKYICYGNLN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g1826.t9 | Gene3D | G3DSA:3.40.605.10 | Aldehyde Dehydrogenase; Chain A | 1 | 82 | 2.2E-25 |
| 8 | g1826.t9 | Gene3D | G3DSA:3.40.309.10 | Aldehyde Dehydrogenase; Chain A | 83 | 274 | 8.4E-71 |
| 6 | g1826.t9 | Gene3D | G3DSA:3.40.605.10 | Aldehyde Dehydrogenase; Chain A | 275 | 309 | 5.8E-8 |
| 2 | g1826.t9 | PANTHER | PTHR43353:SF5 | SUCCINATE-SEMIALDEHYDE DEHYDROGENASE, MITOCHONDRIAL | 2 | 308 | 4.9E-138 |
| 3 | g1826.t9 | PANTHER | PTHR43353 | SUCCINATE-SEMIALDEHYDE DEHYDROGENASE, MITOCHONDRIAL | 2 | 308 | 4.9E-138 |
| 1 | g1826.t9 | Pfam | PF00171 | Aldehyde dehydrogenase family | 2 | 304 | 7.9E-112 |
| 5 | g1826.t9 | ProSitePatterns | PS00687 | Aldehyde dehydrogenases glutamic acid active site. | 79 | 86 | - |
| 4 | g1826.t9 | SUPERFAMILY | SSF53720 | ALDH-like | 2 | 308 | 9.82E-107 |
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.
