General information for g12033.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable 2-oxoglutarate dehydrogenase E1 component DHKTD1 homolog, mitochondrial.
Parent gene
- The parent gene g12033 is located on chr_1: 20558792..20560939 (- 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_1 | g12033 | g12033.t1 | TTS | g12033.t1 | 20556999 | 20556999 |
| chr_1 | g12033 | g12033.t1 | isoform | g12033.t1 | 20557110 | 20560939 |
| chr_1 | g12033 | g12033.t1 | exon | g12033.t1.exon1 | 20557110 | 20557186 |
| chr_1 | g12033 | g12033.t1 | cds | g12033.t1.CDS1 | 20557110 | 20557186 |
| chr_1 | g12033 | g12033.t1 | exon | g12033.t1.exon2 | 20557297 | 20557923 |
| chr_1 | g12033 | g12033.t1 | cds | g12033.t1.CDS2 | 20557297 | 20557923 |
| chr_1 | g12033 | g12033.t1 | exon | g12033.t1.exon3 | 20557983 | 20558400 |
| chr_1 | g12033 | g12033.t1 | cds | g12033.t1.CDS3 | 20557983 | 20558400 |
| chr_1 | g12033 | g12033.t1 | exon | g12033.t1.exon4 | 20558463 | 20558730 |
| chr_1 | g12033 | g12033.t1 | cds | g12033.t1.CDS4 | 20558463 | 20558730 |
| chr_1 | g12033 | g12033.t1 | exon | g12033.t1.exon5 | 20558792 | 20560046 |
| chr_1 | g12033 | g12033.t1 | cds | g12033.t1.CDS5 | 20558792 | 20560046 |
| chr_1 | g12033 | g12033.t1 | exon | g12033.t1.exon6 | 20560798 | 20560939 |
| chr_1 | g12033 | g12033.t1 | cds | g12033.t1.CDS6 | 20560798 | 20560939 |
| chr_1 | g12033 | g12033.t1 | TSS | g12033.t1 | 20561137 | 20561137 |
Sequences
>g12033.t1 Gene=g12033 Length=2787
ATGTATCGAAATCTAATCAAAAGTGTTCAAATTCATAATAAGTTTGTCAAACAATTGAAA
GTGTTCACTTATGCAGCATCTGCGTATCATAATGAGTCTTCCTACTATGGTTATCGTCCA
AAAGTCAAACGTGAATGGAAAATCCCGCAAAATTATTTAAGTGCGCGAAGTGCAAATGCA
AATTTGAATGCTTGGATTAATGCTTATAGATTACATGGACATAGAATTGCAACAGTTGAT
CCGATAAAATGGTTAGATGGAAAAGAAGAAGTACCAGAACTTGAATTTTCACGCTATGGA
TTGAATGAATCACAAGAATTGACAACATTAGAAGGTCTTGTGTCATTTAGTGACTCAACT
TTGCAAACTGTTGGAGATTTAAAGAAAAAACTTGCAGAGACCTATTGCGGAAATGTTTCA
GCTGAATTTGCTTACATTGAAGATGAATTTGAACGAGAATGGTTTATGGAAAATTATGAA
AAATTATTGGAAGAAAAAGCTTTTGTAACAAATGAAGAAAAACGAGATTTAGCAAAAACA
ATGCTTCAATATCAAGAATTTGATAGATTTATGAATGCAAAATTGCCAGCAATAAAACGT
TATGGTGGAGAAGGAGCAGAAGCAATGGTTGCATTCTTCAAAACACTTCTTAAAAATGCA
GCTCTTGATGATGTTTCAATGATTGTTCTTGGAATGCCACATCGAGGAAAATTGAATGCA
CTTGTGAGTCTTTTTAGACATAGACCAGCGAGGATTTTTAGAAAATACAAAGGTCTACCA
GAATTTAGAGACGATGTAAAAGCAATGATGGACATAACTAATCACTTTAGTGTCTCTGAA
GATTATGAATTTGATGGTAAAACAGTTCATCTTTCAATGCTTGCAAATCCATCACATCTT
GAGGCAATTAATCCAGTTTCAATGGGAAAAACACGTTCAAAGCAACAAAGTTTGCGTGAT
GGTGCTTTTAATGATGATCAAGAAAAACTTTTCGGCACAGATGTCATTAATGTACAACTT
CATGGTGATGCAGCTTTAGCTGGACAAGGAGTCAATCAAGAATGTGCAATGATGACTTAC
ACACCAAATTTTGATATTGGTGGAACAATTCATATGGCAGTTAACAATCAAATTGGTTAC
ACAACTCCTGGTGATCGTGGTCGATCAAGTCGCTATTGTACAGATATTGCAAAATCTTAT
AATGCACCAGTCATTCATGTCAACAGTGATGATCCAGAACTTGTAGGCTTAGTCACAAAA
TTGGCTTTCAAATATCAAAGAATGTTCCGCAAAGATATTTTTATTGATTTCAATTGCTTC
CGACGAATGGGTCATAATGAAGTTGATGATCCTACTGTCACTAATCCATGCATGTACAAA
CTAATTAGGGACAAAAAGACAATTCCAGATCTCTATGCTCAAAAGCTAGTCGATGAAGGA
ATAATGACAGCAGAGGAAGTGCAAAAAATTTGTAAAGAGCAATTTGATTATTTTGCTGCA
GAGATGCAAATAGCAGAGTCATTTGTACCAGAGGAAAGTTACTTTCAAAAGCAATGGGAA
GGATTTATACAAGCACCAAGTGATATAACAATTTGGGACACTGGTGTTAGTTGGGATTTA
TTAAGCTTTATTGGTCGCAGCTCTGTTTATTATCCACCAAATTTTAATATTCATCCGCAT
ATAAAGAAAACTTTCATAAATGCAAGAATCAAAAGACTTGTCGAGGGAAATGCAATTGAT
TGGGCAACAGCTGAAGCTTTGGCTTTTGGTAGTCTCATGTATCAAGGTCATAATGTAAGA
TTGTCAGGTGAAGATGTAGGTAGAGGAACTTTTGCACAACGTCATGCAATGTTGATTGAT
CAAGAAACAAATGAAGTATGTGTGCCATTAAATACACTTAAAGGTGGTCTAGGTGGCAAA
TATGAAGTTGCAAACAGCATTTTATCAGAAGAAGCAGTACTTGGATTTGAGTATGGAATG
AGCATCGACAATCCAAACAACTTGGTAATCTGGGAAAGTCAATTCGGTGACTTTTATAAT
GGCGCACAAATAATTTTCGATCAATTTATTGCTAGTGGTGAAACAAAATGGATGACATGT
AGTGGCTTAGTGATGCTATTACCTCACGGTATGGATGGTATGGCTAGTGAACATTCATCA
TGTCGCATGGAACGTTTTCTACAAATGACTGATTCAAAAGAAACTTCACCTGATGGCGAT
GATGTTAATTTTAATGTGATTTATCCAACAACACCTGCACAGTACTTCCATGCATTAAGA
AGGCAAATAATCAGAAATTTCCGTAAACCTCTCGTGGTTGTTGGCCCAAAGACATTATTG
CGAATGTCAGAAGCAACATCGACATTCCAAGACTTTCAACCAGGCATGCACTTTATGAAT
GTTTTACCTGATACAATCGCAAATCCGAAGAATGTAAAGAAAGTGATATTTTGCAGTGGT
AAACATTATTATGCACTCAACAATGAGCGAATCTCAAAGAATATCGAGAATGTAGCAATT
ATTCGCATTGAATCTCTTTGTCCATTCCCAGTGCATGATATTCAAGTTGAGTTGGCAAAA
TATAAAAATGCAACAGTTTGTATTTGGAGTCAAGAAGAACATCGTAACATGGGTGCATGG
AATTTCATTCAACCACGCTTTGAAAATATGTGTGGACGACGAATTAAGTACTCGGGAAGA
AAGGAAGCTGGCACACCTGCAGTTGGAATTGGAAAAGTGCATGCTCAAGAAGTTGTCTAT
GTTGCATCACATCCATTCAGCATTTAA
>g12033.t1 Gene=g12033 Length=928
MYRNLIKSVQIHNKFVKQLKVFTYAASAYHNESSYYGYRPKVKREWKIPQNYLSARSANA
NLNAWINAYRLHGHRIATVDPIKWLDGKEEVPELEFSRYGLNESQELTTLEGLVSFSDST
LQTVGDLKKKLAETYCGNVSAEFAYIEDEFEREWFMENYEKLLEEKAFVTNEEKRDLAKT
MLQYQEFDRFMNAKLPAIKRYGGEGAEAMVAFFKTLLKNAALDDVSMIVLGMPHRGKLNA
LVSLFRHRPARIFRKYKGLPEFRDDVKAMMDITNHFSVSEDYEFDGKTVHLSMLANPSHL
EAINPVSMGKTRSKQQSLRDGAFNDDQEKLFGTDVINVQLHGDAALAGQGVNQECAMMTY
TPNFDIGGTIHMAVNNQIGYTTPGDRGRSSRYCTDIAKSYNAPVIHVNSDDPELVGLVTK
LAFKYQRMFRKDIFIDFNCFRRMGHNEVDDPTVTNPCMYKLIRDKKTIPDLYAQKLVDEG
IMTAEEVQKICKEQFDYFAAEMQIAESFVPEESYFQKQWEGFIQAPSDITIWDTGVSWDL
LSFIGRSSVYYPPNFNIHPHIKKTFINARIKRLVEGNAIDWATAEALAFGSLMYQGHNVR
LSGEDVGRGTFAQRHAMLIDQETNEVCVPLNTLKGGLGGKYEVANSILSEEAVLGFEYGM
SIDNPNNLVIWESQFGDFYNGAQIIFDQFIASGETKWMTCSGLVMLLPHGMDGMASEHSS
CRMERFLQMTDSKETSPDGDDVNFNVIYPTTPAQYFHALRRQIIRNFRKPLVVVGPKTLL
RMSEATSTFQDFQPGMHFMNVLPDTIANPKNVKKVIFCSGKHYYALNNERISKNIENVAI
IRIESLCPFPVHDIQVELAKYKNATVCIWSQEEHRNMGAWNFIQPRFENMCGRRIKYSGR
KEAGTPAVGIGKVHAQEVVYVASHPFSI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g12033.t1 | CDD | cd02016 | TPP_E1_OGDC_like | 187 | 459 | 0 |
| 8 | g12033.t1 | Gene3D | G3DSA:1.10.287.1150 | TPP helical domain | 55 | 137 | 0 |
| 9 | g12033.t1 | Gene3D | G3DSA:3.40.50.970 | - | 138 | 515 | 0 |
| 11 | g12033.t1 | Gene3D | G3DSA:3.40.50.12470 | - | 536 | 805 | 0 |
| 10 | g12033.t1 | Gene3D | G3DSA:3.40.50.11610 | - | 716 | 918 | 0 |
| 4 | g12033.t1 | PANTHER | PTHR23152:SF4 | 2-OXOGLUTARATE DEHYDROGENASE E1 COMPONENT DHKTD1, MITOCHONDRIAL-RELATED | 31 | 921 | 0 |
| 5 | g12033.t1 | PANTHER | PTHR23152 | 2-OXOGLUTARATE DEHYDROGENASE | 31 | 921 | 0 |
| 12 | g12033.t1 | PIRSF | PIRSF000157 | Oxoglu_dh_E1 | 3 | 928 | 0 |
| 3 | g12033.t1 | Pfam | PF00676 | Dehydrogenase E1 component | 309 | 507 | 0 |
| 1 | g12033.t1 | Pfam | PF02779 | Transketolase, pyrimidine binding domain | 578 | 782 | 0 |
| 2 | g12033.t1 | Pfam | PF16870 | 2-oxoglutarate dehydrogenase C-terminal | 786 | 918 | 0 |
| 14 | g12033.t1 | SMART | SM00861 | Transket_pyr_3 | 579 | 782 | 0 |
| 7 | g12033.t1 | SUPERFAMILY | SSF52518 | Thiamin diphosphate-binding fold (THDP-binding) | 127 | 509 | 0 |
| 6 | g12033.t1 | SUPERFAMILY | SSF52518 | Thiamin diphosphate-binding fold (THDP-binding) | 563 | 788 | 0 |
| 15 | g12033.t1 | TIGRFAM | TIGR00239 | 2oxo_dh_E1: oxoglutarate dehydrogenase (succinyl-transferring), E1 component | 60 | 917 | 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 K15791 (probable 2-oxoglutarate dehydrogenase E1 component DHKTD1)
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.
