General information for g950.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable pyruvate dehydrogenase E1 component subunit alpha, mitochondrial.
Parent gene
- The parent gene g950 is located on chr_3: 7018954..7020504 (- 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 | g950 | g950.t1 | TTS | g950.t1 | 7018667 | 7018667 |
| chr_3 | g950 | g950.t1 | isoform | g950.t1 | 7018954 | 7020308 |
| chr_3 | g950 | g950.t1 | exon | g950.t1.exon1 | 7018954 | 7020036 |
| chr_3 | g950 | g950.t1 | cds | g950.t1.CDS1 | 7018954 | 7020036 |
| chr_3 | g950 | g950.t1 | exon | g950.t1.exon2 | 7020092 | 7020160 |
| chr_3 | g950 | g950.t1 | cds | g950.t1.CDS2 | 7020092 | 7020160 |
| chr_3 | g950 | g950.t1 | exon | g950.t1.exon3 | 7020249 | 7020308 |
| chr_3 | g950 | g950.t1 | cds | g950.t1.CDS3 | 7020249 | 7020308 |
| chr_3 | g950 | g950.t1 | TSS | g950.t1 | 7020578 | 7020578 |
Sequences
>g950.t1 Gene=g950 Length=1212
ATGCTGCGAAAGCTTATAGGACAATTCTTTAAAAATCGTCATCAAGATGAATATATTATT
AAAGTTACTTCAGCAGTTTCAAACAAAAATGTAAAAAACTTTTCCTCTGAAGTTGAATTT
GAAGTGAAGGACTTCAAATTACATCGCATTGAAGATAATGGACCGGCAACAAAAGTTTCT
GTTAACAAAGATGATGCATTGAAATTTTATAGACAAATGCTGGCCATTCGTCGCTTGGAA
TCAGCATCTGGTTCAATGTATAAGGAAAAAGCAATTCGAGGATTCTGTCATTTGTATTCT
GGTCAAGAAGCTTGTGCTGTAGGAATGAAAGCTGCTCTTCGCCCCGGTGATGATGTGATC
ACAGCTTATCGTTGTCATGGTTGGACTTATTTGATGGGTGCATCAATTGCTGGTATTCTT
TGTGAATTAACTGGTCATATCGAAGGTGTTGCTAGAGGTAAAGGAGGCTCTATGCATTTA
TATGCACCTAATTTCTATGGCGGAAATGGAATTGTTGGCGCTCAAGTTCCTCTCGGTGCA
GGACTTGCTTTTGCACAAAAATACCGTGGAAAGAATGGCGTTTGTGTTGCTCTTTATGGA
GACGGAGCAGCAAATCAAGGTCAAATTTTTGAAGTTTTTAATATGACGAAACTCTGGAAC
ACACCAGTAATTTATGTTTGTGAAAATAATGGATACGGAATGGGCACATCCGCTGAGAGA
GCTTCGGCCAATACTGATTATTATACTCGTGGAGATTTTGTTCCTGGCATTTGGGTCGAT
GGTATGGATATTTTAGCTGTTCGTGAAGCCACAAGATATACAGTCGACTACGCTAGCAGT
GGAAAAGGACCGATTTTAATGGAAATGGCTACATATCGTTACAGTGGTCACAGTATGTCT
GATCCAGGCACAAGCTATAGATCACGTGATGAAATTCAAGAAGTCCGTCAGAAACGTGAT
CCAATTACATCGTTTAAAGAGAAAGTAATCACTGCTGGCTTAGTTACAGAAGCCGAAATT
AAAACAATTGACAGTGAAATTAAAAAGGAAGTTGATGAGGCCATCAAGAAAGCCAAAAGT
GATCCAGGCATAAATGTCGAAGAGCTCACATGGGATATTTATTGTAAAGATGATAATCTC
AAATTGGTCCGTAATGTTGTTCCTCATACAGAGCTGCCACACAAACGTTTCAACAAAGCA
CAAAATGTATAA
>g950.t1 Gene=g950 Length=403
MLRKLIGQFFKNRHQDEYIIKVTSAVSNKNVKNFSSEVEFEVKDFKLHRIEDNGPATKVS
VNKDDALKFYRQMLAIRRLESASGSMYKEKAIRGFCHLYSGQEACAVGMKAALRPGDDVI
TAYRCHGWTYLMGASIAGILCELTGHIEGVARGKGGSMHLYAPNFYGGNGIVGAQVPLGA
GLAFAQKYRGKNGVCVALYGDGAANQGQIFEVFNMTKLWNTPVIYVCENNGYGMGTSAER
ASANTDYYTRGDFVPGIWVDGMDILAVREATRYTVDYASSGKGPILMEMATYRYSGHSMS
DPGTSYRSRDEIQEVRQKRDPITSFKEKVITAGLVTEAEIKTIDSEIKKEVDEAIKKAKS
DPGINVEELTWDIYCKDDNLKLVRNVVPHTELPHKRFNKAQNV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g950.t1 | CDD | cd02000 | TPP_E1_PDC_ADC_BCADC | 69 | 358 | 0 |
| 5 | g950.t1 | Gene3D | G3DSA:3.40.50.970 | - | 21 | 389 | 0 |
| 2 | g950.t1 | PANTHER | PTHR11516:SF55 | PYRUVATE DEHYDROGENASE E1 COMPONENT SUBUNIT ALPHA | 31 | 396 | 0 |
| 3 | g950.t1 | PANTHER | PTHR11516 | PYRUVATE DEHYDROGENASE E1 COMPONENT, ALPHA SUBUNIT BACTERIAL AND ORGANELLAR | 31 | 396 | 0 |
| 1 | g950.t1 | Pfam | PF00676 | Dehydrogenase E1 component | 72 | 364 | 0 |
| 4 | g950.t1 | SUPERFAMILY | SSF52518 | Thiamin diphosphate-binding fold (THDP-binding) | 49 | 376 | 0 |
| 6 | g950.t1 | TIGRFAM | TIGR03182 | PDH_E1_alph_y: pyruvate dehydrogenase (acetyl-transferring) E1 component, alpha subunit | 64 | 374 | 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:0043231 | intracellular membrane-bounded organelle | CC |
| GO:0004739 | pyruvate dehydrogenase (acetyl-transferring) activity | MF |
| GO:0016624 | oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor | MF |
| GO:0006086 | acetyl-CoA biosynthetic process from pyruvate | BP |
KEGG
Orthology
- This transcript has been annotated with K00161 (pyruvate dehydrogenase E1 component alpha subunit)
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.
