General information for g7167.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Pyruvate dehydrogenase E1 component subunit beta, mitochondrial.
Parent gene
- The parent gene g7167 is located on chr_2: 21761029..21762384 (- 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 | g7167 | g7167.t2 | isoform | g7167.t2 | 21753582 | 21762384 |
| chr_2 | g7167 | g7167.t2 | exon | g7167.t2.exon1 | 21753582 | 21753589 |
| chr_2 | g7167 | g7167.t2 | exon | g7167.t2.exon2 | 21760983 | 21761213 |
| chr_2 | g7167 | g7167.t2 | cds | g7167.t2.CDS1 | 21761029 | 21761213 |
| chr_2 | g7167 | g7167.t2 | exon | g7167.t2.exon3 | 21761275 | 21761619 |
| chr_2 | g7167 | g7167.t2 | cds | g7167.t2.CDS2 | 21761275 | 21761619 |
| chr_2 | g7167 | g7167.t2 | exon | g7167.t2.exon4 | 21761680 | 21762028 |
| chr_2 | g7167 | g7167.t2 | cds | g7167.t2.CDS3 | 21761680 | 21762028 |
| chr_2 | g7167 | g7167.t2 | exon | g7167.t2.exon5 | 21762202 | 21762384 |
| chr_2 | g7167 | g7167.t2 | cds | g7167.t2.CDS4 | 21762202 | 21762384 |
| chr_2 | g7167 | g7167.t2 | TSS | g7167.t2 | 21762506 | 21762506 |
| chr_2 | g7167 | g7167.t2 | TTS | g7167.t2 | NA | NA |
Sequences
>g7167.t2 Gene=g7167 Length=1116
ATGTTGTCAACTGTCGTGAGAAATTTAGCACGTCGTTCGTTCTCAACTACACCTCAAGTG
GCGGCAGCAAAAAATCTCACAGTTAGAGATGCATTGAATTCGGCAATTGATGAGGAAATG
GAGCGCGATGAACGTGTATTCATTCTCGGCGAAGAAGTGGCACAATACGATGGTGCATAT
AAAGTGTCGCGCGGATTGTGGAAGAAATATGGCGATAAGCGTGTTATTGATACACCAATT
ACGGAAATGGGTTTTGCTGGTATTGCTGTAGGTGCTGCTTTTGCTGGTCTTCGTCCGATT
TGCGAATTTATGACTTTTAATTTTTCAATGCAAGCAATTGATCAAGTAATTAACTCAGCA
GCGAAAACATTCTACATGTCAGCTGGTACTGTCAATGTTCCAATTGTTTTTCGCGGTCCA
AATGGTGCAGCATCCGGTGTCGCTGCTCAACATTCACAATGTTTTGGTGCTTGGTATTCT
CATTGTCCTGGTTTAAAAGTTATTTCACCTTATGACAGCGAAGACGCAAAAGGCCTTTTA
AAAGCTGCTATTCGTGATCCAGATCCAGTAGTTTTTCTAGAAAATGAATTGCTCTATGGT
GTTGCTTATCCTGTTAGTGATCAAGTGTTAGATAAAGACTTTGTGCTGCCAATTGGAAAA
GCAAAGATTATGAGACCAGGTAAACATGTTACAATCGTTGCACATTCAAAGGCAGTTGAA
ACTTCATTAGAAGCGGCTAACGAATTGGCCGGTAAAGGCATAGAAGCAGAAGTAATCAAT
TTACGCTCATTAAGACCATTAGACTCGGAGACAATTTTTAAATCTGTTCAAAAAACTCAC
CATTTAGTGACGGTCGAACAAGGATGGCCCCAAAGCGGTATTGGTTCGGAAATTTGTGCT
CGCATCATGGAACACGAGACATTCTTTCATCTAGACGCACCTGTGTGGAGAGTAACAGGT
GTTGATGCACCAATGCCATACGCAAAAACTTTAGAAGCCGCCGCATTACCACAAGGAAAG
GATATTGTGCATGCGGTTAAACAAGTACTTGGTGTTAAATAAATGCATTCGTTTTAACAC
TAACATCATTGATAAGGAAAAAGAAATAAAAGAAAA
>g7167.t2 Gene=g7167 Length=353
MLSTVVRNLARRSFSTTPQVAAAKNLTVRDALNSAIDEEMERDERVFILGEEVAQYDGAY
KVSRGLWKKYGDKRVIDTPITEMGFAGIAVGAAFAGLRPICEFMTFNFSMQAIDQVINSA
AKTFYMSAGTVNVPIVFRGPNGAASGVAAQHSQCFGAWYSHCPGLKVISPYDSEDAKGLL
KAAIRDPDPVVFLENELLYGVAYPVSDQVLDKDFVLPIGKAKIMRPGKHVTIVAHSKAVE
TSLEAANELAGKGIEAEVINLRSLRPLDSETIFKSVQKTHHLVTVEQGWPQSGIGSEICA
RIMEHETFFHLDAPVWRVTGVDAPMPYAKTLEAAALPQGKDIVHAVKQVLGVK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g7167.t2 | CDD | cd07036 | TPP_PYR_E1-PDHc-beta_like | 30 | 196 | 1.2626E-110 |
| 9 | g7167.t2 | Gene3D | G3DSA:3.40.50.970 | - | 25 | 217 | 1.1E-87 |
| 10 | g7167.t2 | Gene3D | G3DSA:3.40.50.920 | - | 218 | 351 | 2.0E-46 |
| 3 | g7167.t2 | PANTHER | PTHR11624 | DEHYDROGENASE RELATED | 11 | 350 | 4.0E-258 |
| 4 | g7167.t2 | PANTHER | PTHR11624:SF96 | PYRUVATE DEHYDROGENASE E1 COMPONENT SUBUNIT BETA, MITOCHONDRIAL | 11 | 350 | 4.0E-258 |
| 2 | g7167.t2 | Pfam | PF02779 | Transketolase, pyrimidine binding domain | 25 | 199 | 1.5E-47 |
| 1 | g7167.t2 | Pfam | PF02780 | Transketolase, C-terminal domain | 219 | 342 | 2.0E-40 |
| 7 | g7167.t2 | SMART | SM00861 | Transket_pyr_3 | 26 | 201 | 1.0E-60 |
| 5 | g7167.t2 | SUPERFAMILY | SSF52518 | Thiamin diphosphate-binding fold (THDP-binding) | 25 | 206 | 2.45E-67 |
| 6 | g7167.t2 | SUPERFAMILY | SSF52922 | TK C-terminal domain-like | 215 | 351 | 2.62E-43 |
| 8 | g7167.t2 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 23 | - |
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:0004739 | pyruvate dehydrogenase (acetyl-transferring) activity | MF |
| GO:0003824 | catalytic activity | MF |
| GO:0006086 | acetyl-CoA biosynthetic process from pyruvate | BP |
KEGG
Orthology
- This transcript has been annotated with K00162 (pyruvate dehydrogenase E1 component beta 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.
