General information for g950.t2
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.t2 | TTS | g950.t2 | 7018667 | 7018667 |
| chr_3 | g950 | g950.t2 | isoform | g950.t2 | 7018954 | 7020504 |
| chr_3 | g950 | g950.t2 | exon | g950.t2.exon1 | 7018954 | 7020036 |
| chr_3 | g950 | g950.t2 | cds | g950.t2.CDS1 | 7018954 | 7020036 |
| chr_3 | g950 | g950.t2 | exon | g950.t2.exon2 | 7020092 | 7020160 |
| chr_3 | g950 | g950.t2 | cds | g950.t2.CDS2 | 7020092 | 7020160 |
| chr_3 | g950 | g950.t2 | exon | g950.t2.exon3 | 7020454 | 7020504 |
| chr_3 | g950 | g950.t2 | cds | g950.t2.CDS3 | 7020454 | 7020504 |
| chr_3 | g950 | g950.t2 | TSS | g950.t2 | 7020578 | 7020578 |
Sequences
>g950.t2 Gene=g950 Length=1203
ATGTTGAGAAAGTGCTTAGTTTTACACAATAAAAATTTATTCAATTCCCTTAAAGTTACT
TCAGCAGTTTCAAACAAAAATGTAAAAAACTTTTCCTCTGAAGTTGAATTTGAAGTGAAG
GACTTCAAATTACATCGCATTGAAGATAATGGACCGGCAACAAAAGTTTCTGTTAACAAA
GATGATGCATTGAAATTTTATAGACAAATGCTGGCCATTCGTCGCTTGGAATCAGCATCT
GGTTCAATGTATAAGGAAAAAGCAATTCGAGGATTCTGTCATTTGTATTCTGGTCAAGAA
GCTTGTGCTGTAGGAATGAAAGCTGCTCTTCGCCCCGGTGATGATGTGATCACAGCTTAT
CGTTGTCATGGTTGGACTTATTTGATGGGTGCATCAATTGCTGGTATTCTTTGTGAATTA
ACTGGTCATATCGAAGGTGTTGCTAGAGGTAAAGGAGGCTCTATGCATTTATATGCACCT
AATTTCTATGGCGGAAATGGAATTGTTGGCGCTCAAGTTCCTCTCGGTGCAGGACTTGCT
TTTGCACAAAAATACCGTGGAAAGAATGGCGTTTGTGTTGCTCTTTATGGAGACGGAGCA
GCAAATCAAGGTCAAATTTTTGAAGTTTTTAATATGACGAAACTCTGGAACACACCAGTA
ATTTATGTTTGTGAAAATAATGGATACGGAATGGGCACATCCGCTGAGAGAGCTTCGGCC
AATACTGATTATTATACTCGTGGAGATTTTGTTCCTGGCATTTGGGTCGATGGTATGGAT
ATTTTAGCTGTTCGTGAAGCCACAAGATATACAGTCGACTACGCTAGCAGTGGAAAAGGA
CCGATTTTAATGGAAATGGCTACATATCGTTACAGTGGTCACAGTATGTCTGATCCAGGC
ACAAGCTATAGATCACGTGATGAAATTCAAGAAGTCCGTCAGAAACGTGATCCAATTACA
TCGTTTAAAGAGAAAGTAATCACTGCTGGCTTAGTTACAGAAGCCGAAATTAAAACAATT
GACAGTGAAATTAAAAAGGAAGTTGATGAGGCCATCAAGAAAGCCAAAAGTGATCCAGGC
ATAAATGTCGAAGAGCTCACATGGGATATTTATTGTAAAGATGATAATCTCAAATTGGTC
CGTAATGTTGTTCCTCATACAGAGCTGCCACACAAACGTTTCAACAAAGCACAAAATGTA
TAA
>g950.t2 Gene=g950 Length=400
MLRKCLVLHNKNLFNSLKVTSAVSNKNVKNFSSEVEFEVKDFKLHRIEDNGPATKVSVNK
DDALKFYRQMLAIRRLESASGSMYKEKAIRGFCHLYSGQEACAVGMKAALRPGDDVITAY
RCHGWTYLMGASIAGILCELTGHIEGVARGKGGSMHLYAPNFYGGNGIVGAQVPLGAGLA
FAQKYRGKNGVCVALYGDGAANQGQIFEVFNMTKLWNTPVIYVCENNGYGMGTSAERASA
NTDYYTRGDFVPGIWVDGMDILAVREATRYTVDYASSGKGPILMEMATYRYSGHSMSDPG
TSYRSRDEIQEVRQKRDPITSFKEKVITAGLVTEAEIKTIDSEIKKEVDEAIKKAKSDPG
INVEELTWDIYCKDDNLKLVRNVVPHTELPHKRFNKAQNV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g950.t2 | CDD | cd02000 | TPP_E1_PDC_ADC_BCADC | 66 | 355 | 4.21367E-145 |
| 6 | g950.t2 | Gene3D | G3DSA:3.40.50.970 | - | 18 | 386 | 1.6E-141 |
| 2 | g950.t2 | PANTHER | PTHR11516:SF55 | PYRUVATE DEHYDROGENASE E1 COMPONENT SUBUNIT ALPHA | 11 | 393 | 7.2E-191 |
| 3 | g950.t2 | PANTHER | PTHR11516 | PYRUVATE DEHYDROGENASE E1 COMPONENT, ALPHA SUBUNIT BACTERIAL AND ORGANELLAR | 11 | 393 | 7.2E-191 |
| 1 | g950.t2 | Pfam | PF00676 | Dehydrogenase E1 component | 69 | 361 | 4.2E-115 |
| 4 | g950.t2 | SUPERFAMILY | SSF52518 | Thiamin diphosphate-binding fold (THDP-binding) | 46 | 373 | 2.52E-100 |
| 5 | g950.t2 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 22 | - |
| 7 | g950.t2 | TIGRFAM | TIGR03182 | PDH_E1_alph_y: pyruvate dehydrogenase (acetyl-transferring) E1 component, alpha subunit | 61 | 371 | 3.6E-128 |
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.
