General information for g7800.t11
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.t11 | isoform | g7800.t11 | 26175786 | 26180664 |
| chr_2 | g7800 | g7800.t11 | exon | g7800.t11.exon1 | 26175786 | 26176852 |
| chr_2 | g7800 | g7800.t11 | cds | g7800.t11.CDS1 | 26175786 | 26176852 |
| chr_2 | g7800 | g7800.t11 | exon | g7800.t11.exon2 | 26176904 | 26177051 |
| chr_2 | g7800 | g7800.t11 | cds | g7800.t11.CDS2 | 26176904 | 26177051 |
| chr_2 | g7800 | g7800.t11 | exon | g7800.t11.exon3 | 26177117 | 26177271 |
| chr_2 | g7800 | g7800.t11 | cds | g7800.t11.CDS3 | 26177117 | 26177271 |
| chr_2 | g7800 | g7800.t11 | exon | g7800.t11.exon4 | 26177860 | 26178255 |
| chr_2 | g7800 | g7800.t11 | cds | g7800.t11.CDS4 | 26177860 | 26178255 |
| chr_2 | g7800 | g7800.t11 | exon | g7800.t11.exon5 | 26180496 | 26180664 |
| chr_2 | g7800 | g7800.t11 | cds | g7800.t11.CDS5 | 26180496 | 26180664 |
| chr_2 | g7800 | g7800.t11 | TSS | g7800.t11 | NA | NA |
| chr_2 | g7800 | g7800.t11 | TTS | g7800.t11 | NA | NA |
Sequences
>g7800.t11 Gene=g7800 Length=1935
ATGTACAAGCGTATTCGTCAAACTAAACCAGTTTTGGATCTTTATGCAGAACAGTTGGTT
AAAGAAGGCGTTGTTACAGTAGAAGAAGTAAAATCAGTCAAAGACAAATATACCAAGATT
TGTGAAGATGCTTTTGAGCAAGCAAAAGTAGAAACACATGTTAAATATAAGGATTGGCTC
GATTCTCCATGGTCAGGTTTCTTTGAAGGAAAGGATCCATTGAAAATGTCACCAACTGGT
GTTCCAGAAGAAACTTTAATTCACATTGGTAACCGCTTCTCTTCACCACCACCTAATGCA
GCAGAATTCATCATTCATAAGGGTCTCTTGCGTGTATTGGCGAGTCGCAAAGATATGGTT
GACTCACGTGTTGTTGATTGGGCAATGGCTGAAGCTATGGCTTTCGGTTCATTAATGCGA
GAAGGAATTCACGTAAGATTATCAGGTCAAGATGTTGAACGTGGTACATTCTCTCATCGA
CACCATGTTTTACATCATCAAGAAGTCGATAAAGCCACATATCGTCCTTTGAGTCACTTG
TATCCTGATCAAGCTCCATATACTGTCTGTAATAGTTCCTTATCTGAATATGGTGTCCTC
GGGTTTGAATTGGGTTACAGTATGACTAATCCTAATGCTCTCGTCTGTTGGGAAGCTCAA
TTCGGTGATTTCAACAACACAGCTCAGTGCATTATTGATCAATTTGTTAGCTCTGGTCAA
GCTAAATGGGTACGTCAAAGCGGTTTAGTTATGCTTTTGCCTCACGGTATGGAAGGCATG
GGACCAGAACACTCTTCAGCTCGTTTAGAACGTTTCCTTCAAATGTCATCTGATGATCCT
GATTACTTCCCACCAGAAAGTGACGAATTTGCCATTAGACAACTTCACGACATCAATTGG
ATTGTGGCCAATTGCTCCACACCAGCAAACTATTTCCACATTCTTCGAAGACAGATTGTT
TTACCATTCAGAAAACCCTTAGTTATCATGACACCTAAAAGCTTGTTGAGACATCCAGAA
TGCAAGAGCAACTTCTCTGAAATGGTTGATGGCACTGAATTCCAACGTGTAATTCCCGAT
AAGGGACCAGCATCAGAAAATCCAAGCAATGTTAAACGCTTAATCTTCTGTACTGGACGT
GTATATTACGACCTAATCAAGGCTCGTCGCGAAAAAGGACTTGAAGGTGATATTGCCATC
AGTACTGTTGAACAGATTACACCTTTCCCATACGATTTGGTAAGAGCTGAATGCGCCAAA
TATTCTAATGCTGAAATTTGCTGGGCACAAGAAGAACATAAAAATCAAGGAGCATGGAAT
TACGTTTTGCCTCGCTTCAATACTAGTTTGAATGCAAGTCGTGGTGTTGGCCTTAATGAT
CATGCATCAATGATGGATTCAATCACCAACACAAATACAACTGTGATAAAGCGAGATGAT
GAGATGAATGCGTCAAATAAAAGTGTTGATACAAAGCGAAAGCAGCTGGAGCGCAAGGAA
AAATCCTTTTGGCGCAGCTGGTTTAGCTTTGGAACACTTTCAGATGAAGAATCAGATACA
GAAGATGAAAAGAATAAGCTGAAAAAAATTGATAAGAAAATTAATGCTAATTCTAATAAT
AATAATAGGGCACGTGGTTCGCAAGTAACTATGAGCACACGTAAATCGAGTGCATGCAAT
TATGTCAACTTTAATGCTCCCAGTGCTGAAGAGGCTAAATCAGCTGCTAAAGCACGCACA
AGCTCGTCATCTGCTAGACCGCTTAGACTTTTTTCAAGACCAGTTTCAGCTTCAACAGCA
TCGGGAAATAAAAGAATGCACATTAAAGAAGAAAATGATTTGATTGATGCTGCAATCTCC
ATTAATTCTCAAGAACCTGATTCAAGAATTGTCAAAAATCAAAACACTTCAAAATGTTAT
AATGTTGATTGCTAA
>g7800.t11 Gene=g7800 Length=644
MYKRIRQTKPVLDLYAEQLVKEGVVTVEEVKSVKDKYTKICEDAFEQAKVETHVKYKDWL
DSPWSGFFEGKDPLKMSPTGVPEETLIHIGNRFSSPPPNAAEFIIHKGLLRVLASRKDMV
DSRVVDWAMAEAMAFGSLMREGIHVRLSGQDVERGTFSHRHHVLHHQEVDKATYRPLSHL
YPDQAPYTVCNSSLSEYGVLGFELGYSMTNPNALVCWEAQFGDFNNTAQCIIDQFVSSGQ
AKWVRQSGLVMLLPHGMEGMGPEHSSARLERFLQMSSDDPDYFPPESDEFAIRQLHDINW
IVANCSTPANYFHILRRQIVLPFRKPLVIMTPKSLLRHPECKSNFSEMVDGTEFQRVIPD
KGPASENPSNVKRLIFCTGRVYYDLIKARREKGLEGDIAISTVEQITPFPYDLVRAECAK
YSNAEICWAQEEHKNQGAWNYVLPRFNTSLNASRGVGLNDHASMMDSITNTNTTVIKRDD
EMNASNKSVDTKRKQLERKEKSFWRSWFSFGTLSDEESDTEDEKNKLKKIDKKINANSNN
NNRARGSQVTMSTRKSSACNYVNFNAPSAEEAKSAAKARTSSSSARPLRLFSRPVSASTA
SGNKRMHIKEENDLIDAAISINSQEPDSRIVKNQNTSKCYNVDC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g7800.t11 | Coils | Coil | Coil | 513 | 533 | - |
| 14 | g7800.t11 | Coils | Coil | Coil | 640 | 644 | - |
| 11 | g7800.t11 | Gene3D | G3DSA:3.40.50.970 | - | 1 | 57 | 4.1E-8 |
| 13 | g7800.t11 | Gene3D | G3DSA:3.40.50.12470 | - | 81 | 361 | 2.6E-153 |
| 12 | g7800.t11 | Gene3D | G3DSA:3.40.50.11610 | - | 262 | 453 | 2.6E-153 |
| 9 | g7800.t11 | MobiDBLite | mobidb-lite | consensus disorder prediction | 573 | 606 | - |
| 10 | g7800.t11 | MobiDBLite | mobidb-lite | consensus disorder prediction | 575 | 603 | - |
| 4 | g7800.t11 | PANTHER | PTHR23152:SF7 | 2-OXOGLUTARATE DEHYDROGENASE, MITOCHONDRIAL | 1 | 469 | 3.9E-230 |
| 5 | g7800.t11 | PANTHER | PTHR23152 | 2-OXOGLUTARATE DEHYDROGENASE | 1 | 469 | 3.9E-230 |
| 3 | g7800.t11 | Pfam | PF00676 | Dehydrogenase E1 component | 1 | 52 | 1.3E-8 |
| 1 | g7800.t11 | Pfam | PF02779 | Transketolase, pyrimidine binding domain | 125 | 339 | 4.0E-69 |
| 2 | g7800.t11 | Pfam | PF16870 | 2-oxoglutarate dehydrogenase C-terminal | 342 | 453 | 3.7E-41 |
| 8 | g7800.t11 | SMART | SM00861 | Transket_pyr_3 | 125 | 338 | 1.9E-53 |
| 7 | g7800.t11 | SUPERFAMILY | SSF52518 | Thiamin diphosphate-binding fold (THDP-binding) | 1 | 68 | 3.65E-6 |
| 6 | g7800.t11 | SUPERFAMILY | SSF52518 | Thiamin diphosphate-binding fold (THDP-binding) | 116 | 344 | 1.67E-46 |
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.
