General information for g1826.t11
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.t11 | isoform | g1826.t11 | 13205255 | 13207189 |
| chr_3 | g1826 | g1826.t11 | exon | g1826.t11.exon1 | 13205255 | 13206417 |
| chr_3 | g1826 | g1826.t11 | cds | g1826.t11.CDS1 | 13205471 | 13206417 |
| chr_3 | g1826 | g1826.t11 | exon | g1826.t11.exon2 | 13206479 | 13206553 |
| chr_3 | g1826 | g1826.t11 | cds | g1826.t11.CDS2 | 13206479 | 13206553 |
| chr_3 | g1826 | g1826.t11 | exon | g1826.t11.exon3 | 13206612 | 13207189 |
| chr_3 | g1826 | g1826.t11 | cds | g1826.t11.CDS3 | 13206612 | 13206777 |
| chr_3 | g1826 | g1826.t11 | TSS | g1826.t11 | 13207183 | 13207183 |
| chr_3 | g1826 | g1826.t11 | TTS | g1826.t11 | NA | NA |
Sequences
>g1826.t11 Gene=g1826 Length=1816
ATGATTAGTCTATCGCAAAGAGTCTTCCAATTTGGAGCAATCAAATTTAATTCTACAAAT
AAGATTCAATTGGTTAGAATGATGCATTCTCTGATTAAAAACCAAGCCTACATTAATGGA
AAGTGGACAAATGCAGCTAACAATAAAACATTTAGTGTAATGAATCCATCAAATCAAGAA
ATAGTTGCACAAGTTCCTGATATGACTAAAATTGATTGTCAAAAAGCAATTGATGCAGCT
AATGATGCATTTTATTCAAAAGAATGGCGTAATGCCACAGCTAAAGATCGATCTACATTA
CTAAAGGTAATAAAAATGACGTAAAAAAGACCTTAATTAAGAAATCAATATATCGGAATT
TTAGAAATGGTTTACACTTTTGGAAGCGAATAAACAAGAAATTGCTCAAATAATGACAAC
TGAGAGTGGCAAACCTATTGCTGAAGCGTTAGGAGAAGTAGCTTACGGAAATTCTTTTGT
TGAATGGTTTGCAGAAGAGGCAAGAAGAATTTATGGTGAAATTGTCCCTTCTCCAGTTGC
CAGCAAACAAATTAAAATTGTACGACAACCTATTGGAGTTGCTGGTCTTATCACACCTTG
GAATTTTCCACACGCAATGATAACACGAAAAGCTGCTGCTGCATTAGCTGCAGGTTGCAC
AGTTGTAATGCGTCCTGCTGAAGACACACCACTTACTGCTCTTGCTCTTTGTAAATTAGC
AGAAGATGCCGGCTTTCCAAAGGGAGTCATAAATTGCGTAACTTCGAGTCGATCACATGC
ATCCGAAATTGGTGAACTTTTGTGCAAAAGTCCAAAAGTAGCAGGAATTTCATTTACCGG
TTCGACTCAAGTTGGAAAACTTTTATATAAACAATGTGGAGAAGGAGTCAAAAGAATTGG
ATTAGAATTAGGTGGAAATGCGGCATTTATAGTTTTTGAATCTGCTAACATTGATCAAGC
TGTTGCTGGTGCAATGGCATCAAAATTTAGAAATTGTGGTCAAACATGTGTATCATCAAA
TCGATTCCTAGTTCAAGAAAAAATTTTTGATCAATTTGTTGAGAAAATTACTGAACAAGT
TAAAGCACTAAAAATCGGTGATGGTACACAATCTGATGTAAAAATTGGACCATTGATTAA
TGAAGCACAACTTCATAAAGTATCTGCAATGGTTGATGATGCAAAATCAAAAGGTGCTAA
AGTCATATATGGTGGTCGAGCATTATCTGAAATTGGCTCACTTTTTTATGAACCGACAAT
AATTTCAAATATTCAATCAAATATGGATTTGTATAACGAAGAAGTTTTTGGACCAGTAAT
TTCACTAATTAAATTTAAAACAGAAGAAGAAGCATTAAAAATCGCAAATAGCACACCTAG
AGGTCTTGCAGGTTATTTCTATAGTCAAGATATAAATCAAATTTTCCGTGTCGAAAGAGA
TCTAGAAGCTGGAATGATTGGAATTAATGAAGGCATCATATCAACAACTGAGGCGCCTTT
TGGTGGAATAAAAGAATCTGGAATTGGTCGAGAAGGTTCAAAACATGGTATCGATGAATA
CGTTGAAATCAAATATATTTGTTATGGAAATTTAAATTAAATATGTAAATGCATTTAAAT
GAATTCCCTGTATTATATGATTGTTATTGTGCATATAAAAATTATATAAAATTTAAACAA
ATAATTTTTATTAAGAACGAGTCTTCCACTAATTTAATTTTAAAATAAATGTCAAACACT
TCATGAAAAATTACAATATGACTTTTAAGATAATGATATCTTTATAATATTGTAATCATT
GTTTTATTTGTTTATA
>g1826.t11 Gene=g1826 Length=395
MTTESGKPIAEALGEVAYGNSFVEWFAEEARRIYGEIVPSPVASKQIKIVRQPIGVAGLI
TPWNFPHAMITRKAAAALAAGCTVVMRPAEDTPLTALALCKLAEDAGFPKGVINCVTSSR
SHASEIGELLCKSPKVAGISFTGSTQVGKLLYKQCGEGVKRIGLELGGNAAFIVFESANI
DQAVAGAMASKFRNCGQTCVSSNRFLVQEKIFDQFVEKITEQVKALKIGDGTQSDVKIGP
LINEAQLHKVSAMVDDAKSKGAKVIYGGRALSEIGSLFYEPTIISNIQSNMDLYNEEVFG
PVISLIKFKTEEEALKIANSTPRGLAGYFYSQDINQIFRVERDLEAGMIGINEGIISTTE
APFGGIKESGIGREGSKHGIDEYVEIKYICYGNLN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g1826.t11 | CDD | cd07103 | ALDH_F5_SSADH_GabD | 1 | 390 | 0.0 |
| 6 | g1826.t11 | Gene3D | G3DSA:3.40.605.10 | Aldehyde Dehydrogenase; Chain A | 1 | 384 | 7.3E-154 |
| 7 | g1826.t11 | Gene3D | G3DSA:3.40.309.10 | Aldehyde Dehydrogenase; Chain A | 171 | 361 | 7.3E-154 |
| 2 | g1826.t11 | PANTHER | PTHR43353:SF5 | SUCCINATE-SEMIALDEHYDE DEHYDROGENASE, MITOCHONDRIAL | 1 | 393 | 1.2E-185 |
| 3 | g1826.t11 | PANTHER | PTHR43353 | SUCCINATE-SEMIALDEHYDE DEHYDROGENASE, MITOCHONDRIAL | 1 | 393 | 1.2E-185 |
| 1 | g1826.t11 | Pfam | PF00171 | Aldehyde dehydrogenase family | 2 | 389 | 8.1E-146 |
| 5 | g1826.t11 | ProSitePatterns | PS00687 | Aldehyde dehydrogenases glutamic acid active site. | 164 | 171 | - |
| 4 | g1826.t11 | SUPERFAMILY | SSF53720 | ALDH-like | 2 | 393 | 8.25E-140 |
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 transcript has been annotated with K00135 (succinate-semialdehyde dehydrogenase / glutarate-semialdehyde dehydrogenase)
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.
