General information for g9554.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial.
Parent gene
- The parent gene g9554 is located on chr_1: 4040099..4041433 (- 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 | g9554 | g9554.t1 | TTS | g9554.t1 | 4039917 | 4039917 |
| chr_1 | g9554 | g9554.t1 | isoform | g9554.t1 | 4040099 | 4041433 |
| chr_1 | g9554 | g9554.t1 | exon | g9554.t1.exon1 | 4040099 | 4041319 |
| chr_1 | g9554 | g9554.t1 | cds | g9554.t1.CDS1 | 4040099 | 4041319 |
| chr_1 | g9554 | g9554.t1 | exon | g9554.t1.exon2 | 4041377 | 4041433 |
| chr_1 | g9554 | g9554.t1 | cds | g9554.t1.CDS2 | 4041377 | 4041433 |
| chr_1 | g9554 | g9554.t1 | TSS | g9554.t1 | 4041520 | 4041520 |
Sequences
>g9554.t1 Gene=g9554 Length=1278
ATGTTGAGCCGAAATATATTTAATTTACTAAAGCGAGCTAAGTTGCCACCATCTAAGTTT
TACACAACATCATCAACAAGTTCAGAACCATTATATCGAGGAATTCGGGAGACTCAATTT
ACAAATAAACCAACGCTTCTTATGCCAGAAGATTATGCTCCAATTCCTATTTATCGTGTA
ATTGATTCGGAAGGAAATGTTCTTGATTCATCACAAGAACCAAATCTATCTAAAGAGGTT
TTGCAAAAATGCTTTAGAGATATGGTGACGATCAATGCACTTGATAAAATCATGTATGAA
AGTCAACGTCAAGGTAGAATTTCATTTTATATGACAAATTTCGGAGAAGAGGCTTCACAT
TTGGGTTCGGCAGCAGCTCTTAGTAATGAGGACATCATATATGCACAATATCGTGAAGCA
GGAGTACTATTATGGCGTGGATGGACGTTATCACAATTTATCGATCAACTTTATGGCAAT
GTTGATGATGAGGGAAAAGGAAAACAAATGCCTGTACATTATGGTTCTAAAAAACTTAAT
TTCATTACAATATCAAGCACACTCTCAACTCAAGTACCGCAAGCAGTTGGATCAGCTTAT
GCATTGAAAAGAATGCCTAATAATCAAAGAATTGTTGTTGCTTATTTTGGAGACGGTGCC
AGTAGTGAAGGTGATGTGCATGCAGCTTTGAATTTCGCTGCTACTCTGGATTGTCCAGTT
ATGTTCTTTGTTCGAAACAACGGTTATGCTATTTCTACACCAGTTCAAGAGCAATATAGA
GGCGATGGAATAGCTTCAAGAGCATCTGGATATGGTATGGCTGCTTTGAGAGTAGATGGA
ACAGATATGCTTGCAGTTTATAATGCAACAAAAGTTGCACGTGAATATTGTTTGAAAAAC
AATAAGCCAATTATATTAGAATCTATGCAATATCGTCTTGGTCATCATTCAACTTCAGAT
GATTCTTCTGTTTATAGATCAACTGAAGAGCTTGAAATTTGGAATACAAAAGAACATCCA
ATTAACAAGTTAAAGAATTATATGATTAAGAAAGGATGGTTCAATGAAGATGAAGAAAAT
GAGTTTGTTAAAAATATTCGACGACAGATTATGAATCAAAATCAACAATCTGAAAAGAAA
CTTAAGCCTGATTGGCGTGAAACATTCTACGATGTTTATGATGATCTTCCACTCAATTTG
AGAAAGCAATTAAACGAAATGGAGCAACATGTTAAAAAGTATGAAAAGAACTATCCGTTG
AAGAATTTTAAATCATAA
>g9554.t1 Gene=g9554 Length=425
MLSRNIFNLLKRAKLPPSKFYTTSSTSSEPLYRGIRETQFTNKPTLLMPEDYAPIPIYRV
IDSEGNVLDSSQEPNLSKEVLQKCFRDMVTINALDKIMYESQRQGRISFYMTNFGEEASH
LGSAAALSNEDIIYAQYREAGVLLWRGWTLSQFIDQLYGNVDDEGKGKQMPVHYGSKKLN
FITISSTLSTQVPQAVGSAYALKRMPNNQRIVVAYFGDGASSEGDVHAALNFAATLDCPV
MFFVRNNGYAISTPVQEQYRGDGIASRASGYGMAALRVDGTDMLAVYNATKVAREYCLKN
NKPIILESMQYRLGHHSTSDDSSVYRSTEELEIWNTKEHPINKLKNYMIKKGWFNEDEEN
EFVKNIRRQIMNQNQQSEKKLKPDWRETFYDVYDDLPLNLRKQLNEMEQHVKKYEKNYPL
KNFKS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g9554.t1 | CDD | cd02000 | TPP_E1_PDC_ADC_BCADC | 85 | 370 | 0 |
| 5 | g9554.t1 | Gene3D | G3DSA:3.40.50.970 | - | 28 | 425 | 0 |
| 2 | g9554.t1 | PANTHER | PTHR43380:SF1 | 2-OXOISOVALERATE DEHYDROGENASE SUBUNIT ALPHA, MITOCHONDRIAL | 25 | 423 | 0 |
| 3 | g9554.t1 | PANTHER | PTHR43380 | 2-OXOISOVALERATE DEHYDROGENASE SUBUNIT ALPHA, MITOCHONDRIAL | 25 | 423 | 0 |
| 1 | g9554.t1 | Pfam | PF00676 | Dehydrogenase E1 component | 88 | 383 | 0 |
| 4 | g9554.t1 | SUPERFAMILY | SSF52518 | Thiamin diphosphate-binding fold (THDP-binding) | 54 | 419 | 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:0003863 | 3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity | MF |
| GO:0009083 | branched-chain amino acid catabolic process | BP |
| GO:0003826 | NA | NA |
| 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 K00166 (2-oxoisovalerate 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.
