General information for g7800.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 2-oxoglutarate dehydrogenase, mitochondrial.
Parent gene
- The parent gene g7800 is located on chr_2: 26164427..26168629 (+ 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_2 | g7800 | g7800.t9 | isoform | g7800.t9 | 26162754 | 26168629 |
| chr_2 | g7800 | g7800.t9 | exon | g7800.t9.exon1 | 26162754 | 26162822 |
| chr_2 | g7800 | g7800.t9 | TSS | g7800.t9 | 26162757 | 26162757 |
| chr_2 | g7800 | g7800.t9 | exon | g7800.t9.exon2 | 26164413 | 26164516 |
| chr_2 | g7800 | g7800.t9 | cds | g7800.t9.CDS1 | 26164427 | 26164516 |
| chr_2 | g7800 | g7800.t9 | exon | g7800.t9.exon3 | 26164642 | 26164782 |
| chr_2 | g7800 | g7800.t9 | cds | g7800.t9.CDS2 | 26164642 | 26164782 |
| chr_2 | g7800 | g7800.t9 | exon | g7800.t9.exon4 | 26164847 | 26165059 |
| chr_2 | g7800 | g7800.t9 | cds | g7800.t9.CDS3 | 26164847 | 26165059 |
| chr_2 | g7800 | g7800.t9 | exon | g7800.t9.exon5 | 26165520 | 26165643 |
| chr_2 | g7800 | g7800.t9 | cds | g7800.t9.CDS4 | 26165520 | 26165643 |
| chr_2 | g7800 | g7800.t9 | exon | g7800.t9.exon6 | 26167422 | 26167677 |
| chr_2 | g7800 | g7800.t9 | cds | g7800.t9.CDS5 | 26167422 | 26167677 |
| chr_2 | g7800 | g7800.t9 | exon | g7800.t9.exon7 | 26167744 | 26168270 |
| chr_2 | g7800 | g7800.t9 | cds | g7800.t9.CDS6 | 26167744 | 26168270 |
| chr_2 | g7800 | g7800.t9 | exon | g7800.t9.exon8 | 26168346 | 26168629 |
| chr_2 | g7800 | g7800.t9 | cds | g7800.t9.CDS7 | 26168346 | 26168629 |
| chr_2 | g7800 | g7800.t9 | TTS | g7800.t9 | NA | NA |
Sequences
>g7800.t9 Gene=g7800 Length=1718
ATTCAGTTGTCTCACAACAAGCGGTGTGGAAACACCAAAAACTGATTCAATCCGAAAAAT
AGCTGAAAGTAACCTCGTAAAAAATGCATCGTGCTAGAACAGCCTTTAATATTTTAACGC
CGGCAGGACAACAAAACTTCGGCTCGTGGTTAGTACGCCAGCAAAACTCAAAAATTGCAA
ATGATTTTGTTGCTGCCTCAGCTGTGAAAACATACAATTCGGCTGCTGCCGAGCCATTCC
TCAATGGATCTAGCTCAGCTTATGTTGAGGAAATGTATAATGCATGGTTGCGCGATCCAA
ATTCTGTTCACGCTTCGTGGGACGCTTATTTTCGAAATAATTCGTACTCATCTCCACCAA
CTTTAGCTCCACCCCCAAAACATCATATTCCAGCATCTCAATATACCGGCAGTTCACTTC
CTGCTGTCAGTGGAGGAGGATTCTCTGGTCCAGCGCTTGGCAGTCAAGTCAATGAAAAAC
TTATTGATGACCATTTAGCTGTTCAAGCTATCATCAGAAGTTATCAGTCACGCGGTCACT
TGATGGCTGATATTGACCCGTTGAAAATTCTCAACTCAGAAACACAAATAGGTCCTGATG
GTATTCCACGAAGAGCAAATGAAAAAGTTACTCGCAACTATATGCAATTTGGTGAACATG
ATATGGATAGATCATTCAAATTGCCAAGCACAACATTTATTGGAGGAAAGGAAAAATATT
TACCACTTCGTGAAATTTTGAGTCGACTCGAGAATGCATATTGTAATAAAATTGGTGTTG
AATTCATGTTTATAAACTCACTCGAGCAATGTAATTGGATTCGTGAAAAGTTTGAATCAC
CGAATGCAATAAATTTTTCACATGACGAGAAGCGCTTAATTATGGCTCGTCTTACTCGTG
CCACTGGATTTGAGGCTTTCTTATCGAAAAAGTTTTCATCTGAAAAACGTTTTGGTTTAG
AAGGTTGCGAAATTATGATCCCAGCAATGAAGGAAGTTATCGATACCTCAACTCGTCTTG
GCGTTGAATCGATCATCATGGGCATGCCTCATCGCGGTCGTCTCAATGTTCTTGCCAATG
TTTGCCGCAAACCATTACATCAAATGTTTACACAATTTGCTGGTTTGGAAGCAGCTGATG
ATGGATCTGGTGATGTGAAATACCACTTGGGTACATATATTGAACGTCTCAACCGTGTTA
CAAACAAAAATATTCGTCTGGCTGTTGTCGCTAACCCATCACATCTAGAAGCTTGCGATC
CAGTTGTGCAAGGAAAAACACGGGCTGAACAGTTTTACCGCGGTGATGGAGAGGGGCGTA
AAGTTATGTCAATTCTTCTTCATGGTGATGCTGCTTTTGCTGGTCAAGGTGTTGTTTTTG
AGACAATGCACTTGTCAGATTTACCTGATTATACAACTCATGGAACTATTCATTTGGTTG
TTAACAATCAAATTGGTTTCACAACTGATCCTCGTCATTCGCGTTCATCAGCATATTGTA
CAGATGTTGCTCGTGTTGTAAACGCTCCAATTTTCCATGTCAACTCAGATGATCCAGAAG
CAGTTATGCATGTATGTCGTGTTGCTGCTGAGTGGCGTGCGACCTTCCATAAGGATGTAG
TCATTGATATCGTGTGTTATCGTCGTAATGGACACAATGAGCTTGATGAACCAGGACTCA
GTGCGACGCCGTTCCAAACACCTCTAACTCCTTTTTAA
>g7800.t9 Gene=g7800 Length=544
MHRARTAFNILTPAGQQNFGSWLVRQQNSKIANDFVAASAVKTYNSAAAEPFLNGSSSAY
VEEMYNAWLRDPNSVHASWDAYFRNNSYSSPPTLAPPPKHHIPASQYTGSSLPAVSGGGF
SGPALGSQVNEKLIDDHLAVQAIIRSYQSRGHLMADIDPLKILNSETQIGPDGIPRRANE
KVTRNYMQFGEHDMDRSFKLPSTTFIGGKEKYLPLREILSRLENAYCNKIGVEFMFINSL
EQCNWIREKFESPNAINFSHDEKRLIMARLTRATGFEAFLSKKFSSEKRFGLEGCEIMIP
AMKEVIDTSTRLGVESIIMGMPHRGRLNVLANVCRKPLHQMFTQFAGLEAADDGSGDVKY
HLGTYIERLNRVTNKNIRLAVVANPSHLEACDPVVQGKTRAEQFYRGDGEGRKVMSILLH
GDAAFAGQGVVFETMHLSDLPDYTTHGTIHLVVNNQIGFTTDPRHSRSSAYCTDVARVVN
APIFHVNSDDPEAVMHVCRVAAEWRATFHKDVVIDIVCYRRNGHNELDEPGLSATPFQTP
LTPF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g7800.t9 | CDD | cd02016 | TPP_E1_OGDC_like | 276 | 530 | 0 |
| 6 | g7800.t9 | Gene3D | G3DSA:1.10.287.1150 | TPP helical domain | 130 | 228 | 0 |
| 7 | g7800.t9 | Gene3D | G3DSA:3.40.50.970 | - | 229 | 537 | 0 |
| 3 | g7800.t9 | PANTHER | PTHR23152:SF5 | 2-OXOGLUTARATE DEHYDROGENASE-LIKE, MITOCHONDRIAL | 30 | 532 | 0 |
| 4 | g7800.t9 | PANTHER | PTHR23152 | 2-OXOGLUTARATE DEHYDROGENASE | 30 | 532 | 0 |
| 2 | g7800.t9 | Pfam | PF16078 | 2-oxoglutarate dehydrogenase N-terminus | 51 | 85 | 0 |
| 1 | g7800.t9 | Pfam | PF00676 | Dehydrogenase E1 component | 269 | 530 | 0 |
| 5 | g7800.t9 | SUPERFAMILY | SSF52518 | Thiamin diphosphate-binding fold (THDP-binding) | 185 | 531 | 0 |
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:0006099 | tricarboxylic acid cycle | BP |
| GO:0004591 | oxoglutarate dehydrogenase (succinyl-transferring) activity | MF |
| GO:0055114 | NA | NA |
| GO:0030976 | thiamine pyrophosphate binding | MF |
| GO:0016624 | oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor | MF |
KEGG
Orthology
- This transcript has been annotated with K00164 (2-oxoglutarate dehydrogenase E1 component)
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.
