General information for g9425.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Pyruvate dehydrogenase E1 component subunit alpha type II, mitochondrial .
Parent gene
- The parent gene g9425 is located on chr_1: 2857514..2859684 (+ 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 | g9425 | g9425.t12 | TSS | g9425.t12 | 2855702 | 2855702 |
| chr_1 | g9425 | g9425.t12 | isoform | g9425.t12 | 2855799 | 2857514 |
| chr_1 | g9425 | g9425.t12 | exon | g9425.t12.exon1 | 2855799 | 2855855 |
| chr_1 | g9425 | g9425.t12 | cds | g9425.t12.CDS1 | 2855799 | 2855855 |
| chr_1 | g9425 | g9425.t12 | exon | g9425.t12.exon2 | 2855922 | 2855960 |
| chr_1 | g9425 | g9425.t12 | cds | g9425.t12.CDS2 | 2855922 | 2855960 |
| chr_1 | g9425 | g9425.t12 | exon | g9425.t12.exon3 | 2856124 | 2856471 |
| chr_1 | g9425 | g9425.t12 | cds | g9425.t12.CDS3 | 2856124 | 2856471 |
| chr_1 | g9425 | g9425.t12 | exon | g9425.t12.exon4 | 2856525 | 2856569 |
| chr_1 | g9425 | g9425.t12 | cds | g9425.t12.CDS4 | 2856525 | 2856569 |
| chr_1 | g9425 | g9425.t12 | exon | g9425.t12.exon5 | 2856653 | 2856803 |
| chr_1 | g9425 | g9425.t12 | cds | g9425.t12.CDS5 | 2856653 | 2856803 |
| chr_1 | g9425 | g9425.t12 | exon | g9425.t12.exon6 | 2856862 | 2857316 |
| chr_1 | g9425 | g9425.t12 | cds | g9425.t12.CDS6 | 2856862 | 2856965 |
| chr_1 | g9425 | g9425.t12 | exon | g9425.t12.exon7 | 2857456 | 2857514 |
| chr_1 | g9425 | g9425.t12 | TTS | g9425.t12 | 2857573 | 2857573 |
Sequences
>g9425.t12 Gene=g9425 Length=1154
ATGATGCAAAATATTTCGAGAAATACATCAAAGTTATTATGGAGAAATGCTGGAATAAAA
AATTATGCAACAGAGGCAACTTTTGAAGTCAATCGGCCATATAAACTCCATCGTCTCGAT
TCTGGTCCATCAACAACTGTTTCAGTAACTCGTGATGAAGCACTTGATATGTATAGAAAA
ATGCAATCAATTCGTCGCCTTGAGACAAGTGCCGGTAACTTGTATAAGGAAAAGATTGTT
CGTGGATTCTGTCATTTGTATTCTGGTCAAGAGGCTGTTGCTGTTGGAATGAAAGCTTCG
ATGCGCGAACAAGACAATATTATTTCTGCATATCGTGTTCATGGTTGGACACATTTAATG
GGAGTGTCAGTAGCTGGCGTCTTGTCAGAATTGACTGGTAAAAAAGGTGGTTGTGCTCGT
GGAAAAGGCGGTTCAATGCATATGTATTCAAAAAATTTCTATGGAGGAAACGGAATTGTT
GGCGCTCAAGTGTTGCTTTTGCATGCAAATACAAAAACAATGGAGGTGTATGCTTGTCAC
TTTACGGAGATGGTGCATCAAATCAAGGACAAGTTTTTGAAGCTTACAATATGGCTTATC
TCTGGAAATTACCATGCATTTTCATTTGTGAAAACAATGGATATGGCATGGGAACAAGTG
CTGAACGTTCATCAAGCAATACAGAATATTACAAACGTGGTGATGTTTTGCCTGGCTTAT
GGATTGATGGTATGGATGTATTAGCTGTTAAAGAAGGAACACGATTTGCAATTGATTATG
TATTAAAAAATGGTCCTATTGTGATTGAAGCTGCTACTTATCGTTATTCAGGCCATAGCA
TGTCTGATCCAGGCACAAGCTACAGATCACGTGATGAAATTCAAGAAGTTCGTCAAAAAC
GTGATCCAATCACTTCATTTAAAGAGAGAATGCTTGAGACTGGTTTAGCAACAGAAGCTG
ATATTAAGAAAATTGATAGTGAAGTTAAGAAAGAAGTTGATGCAGCAACAGCACTTGCAA
AGAGTGATACTGAAATCCCTGTATCAGAACTCACATGCGATATTTACTCCATGAATCAAG
AGGGTGATGTGCATGGATTGACACCAGACAAAAAGTTAAAGCACACAACACTCAAGACTG
CTGTAAATCTTTAA
>g9425.t12 Gene=g9425 Length=247
MMQNISRNTSKLLWRNAGIKNYATEATFEVNRPYKLHRLDSGPSTTVSVTRDEALDMYRK
MQSIRRLETSAGNLYKEKIVRGFCHLYSGQEAVAVGMKASMREQDNIISAYRVHGWTHLM
GVSVAGVLSELTGKKGGCARGKGGSMHMYSKNFYGGNGIVGAQVLLLHANTKTMEVYACH
FTEMVHQIKDKFLKLTIWLISGNYHAFSFVKTMDMAWEQVLNVHQAIQNITNVVMFCLAY
GLMVWMY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9425.t12 | Gene3D | G3DSA:3.40.50.970 | - | 8 | 170 | 4.2E-48 |
| 2 | g9425.t12 | PANTHER | PTHR11516:SF55 | PYRUVATE DEHYDROGENASE E1 COMPONENT SUBUNIT ALPHA | 17 | 166 | 8.2E-69 |
| 3 | g9425.t12 | PANTHER | PTHR11516 | PYRUVATE DEHYDROGENASE E1 COMPONENT, ALPHA SUBUNIT BACTERIAL AND ORGANELLAR | 17 | 166 | 8.2E-69 |
| 1 | g9425.t12 | Pfam | PF00676 | Dehydrogenase E1 component | 59 | 168 | 9.5E-26 |
| 9 | g9425.t12 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 191 | - |
| 11 | g9425.t12 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 192 | 210 | - |
| 10 | g9425.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 211 | 229 | - |
| 12 | g9425.t12 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 230 | 246 | - |
| 8 | g9425.t12 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 247 | 247 | - |
| 6 | g9425.t12 | SUPERFAMILY | SSF52518 | Thiamin diphosphate-binding fold (THDP-binding) | 22 | 165 | 7.66E-30 |
| 4 | g9425.t12 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 192 | 209 | - |
| 5 | g9425.t12 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 224 | 246 | - |
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:0016624 | oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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. There were no conditions that were differentially expressed