General information for g9428.t11
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as [Pyruvate dehydrogenase (acetyl-transferring)] kinase, mitochondrial.
Parent gene
- The parent gene g9428 is located on chr_1: 2867799..2868793 (+ 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 | g9428 | g9428.t11 | isoform | g9428.t11 | 2865981 | 2868420 |
| chr_1 | g9428 | g9428.t11 | exon | g9428.t11.exon1 | 2865981 | 2865984 |
| chr_1 | g9428 | g9428.t11 | exon | g9428.t11.exon2 | 2866042 | 2866189 |
| chr_1 | g9428 | g9428.t11 | cds | g9428.t11.CDS1 | 2866060 | 2866189 |
| chr_1 | g9428 | g9428.t11 | exon | g9428.t11.exon3 | 2866255 | 2866422 |
| chr_1 | g9428 | g9428.t11 | cds | g9428.t11.CDS2 | 2866255 | 2866422 |
| chr_1 | g9428 | g9428.t11 | exon | g9428.t11.exon4 | 2866490 | 2866780 |
| chr_1 | g9428 | g9428.t11 | cds | g9428.t11.CDS3 | 2866490 | 2866780 |
| chr_1 | g9428 | g9428.t11 | exon | g9428.t11.exon5 | 2867240 | 2867349 |
| chr_1 | g9428 | g9428.t11 | cds | g9428.t11.CDS4 | 2867240 | 2867349 |
| chr_1 | g9428 | g9428.t11 | exon | g9428.t11.exon6 | 2867405 | 2867503 |
| chr_1 | g9428 | g9428.t11 | cds | g9428.t11.CDS5 | 2867405 | 2867503 |
| chr_1 | g9428 | g9428.t11 | exon | g9428.t11.exon7 | 2867813 | 2868420 |
| chr_1 | g9428 | g9428.t11 | cds | g9428.t11.CDS6 | 2867813 | 2867839 |
| chr_1 | g9428 | g9428.t11 | TTS | g9428.t11 | 2868794 | 2868794 |
| chr_1 | g9428 | g9428.t11 | TSS | g9428.t11 | NA | NA |
Sequences
>g9428.t11 Gene=g9428 Length=1428
TCATGCTGATGTTGTTCAAACGATGGCTCATGGAATTATTGAAATGAAGGAAGCTCAAAA
TATTGAACCAGGAATGGAAACAAGCATTCAATATTTCTTAGATCGTTTCTACATGTCGAG
AATTTCCATTCGAATGCTCATCAATCAGCACACGATCCTTTTTGGAGAGCTGCCTCAACA
GACGCATCAACAGCATGTCGGTTGCATTGAAATTGATTTCGATCCAAAAGTTGTTGTTCG
TGATGCGTATGAAAACGCAAGATATCTCTGTGATCAAAATTATTTAGGTTCACCAGAAAT
TGAAATTATCGAACACAATGAAATGGAAAAGGGTCAACCAATAAAAATTGTATATGTGCC
ATCACATTTATATCACATTCTTTTTGAGTTGTTTAAAAACTCAATGAGAGCTGTTATGGA
AACACATCAAGAAAGTGATTCAATTCCTCCGATTAAAGTAAGGATTGTAAATGGAAAAGA
AGATGTCAGTGTTAAAATTAGTGATTGCGGAGGTGGAATACCACGATCACAAGTCGATCA
ACTTTTTAAGTACATGTACTCAACTGCTCCACATCCTTCAAAATCAGATGTTCACACAGT
TCCATTAGCTGGCTATGGATATGGTTTGCCTATTTCGCGTTTATATGCAAGATACTTTCA
TGGTGATATTTCACTGCTTTCCTGTGAAGGTTTTGGAACTGATGCAGTGATTTATTTAAA
ACGTTTATCTGATGAGGCAAATGAATTATTGCCAATTTTTAATAAAACAAGTTCAAGATT
TTATAAGGCATCTGTTCCAGCTGGAGATTGGTCAAATCAAAAATATGTAACTGGATATGG
TTTTTAGTCAAATGATATAAAATATTATTTAAGCCCTGGAGGCACATGTGAAGAAGAAAA
GAGTAAATTTACTTTATATTTTTGTTATAGTTTTTATTTAATTTGATTTATGAGCTGAAT
GAAAAATGCTTGTGAAGATGAAATTTTATTCTCATACAAATTGTAAATTATTTTGCATTA
AAATAATTAAAAAATTTTATTTTCTTTCTCTAAATATATTTTTAAAAACAACAAAATTAT
GATTGAAGTTTAGCTGATAAGACAAAGTTTAACATGTAACTGTAATAAAAACTAACAATA
TTTTTATAAAAATCATTTTATTTTTTATTATGATTTTGTTTTATATTTTTATTATTAAAA
ATGAAATTGACACATTGAATGATGTAGAAATTTCAATTTGTAAAATTATTTTTCTTTTCA
TATCTACACATGCTTTTCTATGAATAAATATTTTACTGAATGCTTTAATATGCAATCTGC
AGATCTATTTATAATTCAATTATTCTAACTTCATCATCCTCTCCTTTTTAGAGCTCTGAG
ATGAATTCGACATTTAATCAATGGAAATTTGTAAAAAAAGGACAGTAA
>g9428.t11 Gene=g9428 Length=274
MAHGIIEMKEAQNIEPGMETSIQYFLDRFYMSRISIRMLINQHTILFGELPQQTHQQHVG
CIEIDFDPKVVVRDAYENARYLCDQNYLGSPEIEIIEHNEMEKGQPIKIVYVPSHLYHIL
FELFKNSMRAVMETHQESDSIPPIKVRIVNGKEDVSVKISDCGGGIPRSQVDQLFKYMYS
TAPHPSKSDVHTVPLAGYGYGLPISRLYARYFHGDISLLSCEGFGTDAVIYLKRLSDEAN
ELLPIFNKTSSRFYKASVPAGDWSNQKYVTGYGF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g9428.t11 | CDD | cd16929 | HATPase_PDK-like | 67 | 233 | 0.000 |
| 9 | g9428.t11 | Gene3D | G3DSA:1.20.140.20 | - | 1 | 58 | 0.000 |
| 8 | g9428.t11 | Gene3D | G3DSA:3.30.565.10 | - | 66 | 245 | 0.000 |
| 3 | g9428.t11 | PANTHER | PTHR11947:SF15 | [PYRUVATE DEHYDROGENASE (ACETYL-TRANSFERRING)] KINASE ISOZYME 2, MITOCHONDRIAL | 1 | 258 | 0.000 |
| 4 | g9428.t11 | PANTHER | PTHR11947 | PYRUVATE DEHYDROGENASE KINASE | 1 | 258 | 0.000 |
| 1 | g9428.t11 | Pfam | PF10436 | Mitochondrial branched-chain alpha-ketoacid dehydrogenase kinase | 1 | 63 | 0.000 |
| 2 | g9428.t11 | Pfam | PF02518 | Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase | 113 | 233 | 0.000 |
| 10 | g9428.t11 | ProSiteProfiles | PS50109 | Histidine kinase domain profile. | 113 | 236 | 19.345 |
| 7 | g9428.t11 | SMART | SM00387 | HKATPase_4 | 111 | 236 | 0.000 |
| 5 | g9428.t11 | SUPERFAMILY | SSF69012 | alpha-ketoacid dehydrogenase kinase, N-terminal domain | 1 | 49 | 0.000 |
| 6 | g9428.t11 | SUPERFAMILY | SSF55874 | ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | 95 | 244 | 0.000 |
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:0004672 | protein kinase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00898 (pyruvate dehydrogenase kinase 2/3/4)
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.
