Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable 3-hydroxyisobutyrate dehydrogenase, mitochondrial.

Parent gene

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 g7588 g7588.t4 TTS g7588.t4 24742066 24742066
chr_2 g7588 g7588.t4 isoform g7588.t4 24742231 24743121
chr_2 g7588 g7588.t4 exon g7588.t4.exon1 24742231 24742364
chr_2 g7588 g7588.t4 cds g7588.t4.CDS1 24742231 24742364
chr_2 g7588 g7588.t4 exon g7588.t4.exon2 24742440 24743121
chr_2 g7588 g7588.t4 cds g7588.t4.CDS2 24742440 24743079
chr_2 g7588 g7588.t4 TSS g7588.t4 24743809 24743809

Sequences

>g7588.t4 Gene=g7588 Length=816
AAATTGAATGTCTTTGATGTTTCACCAGAAGCATGTGATGCGATGAAAGCAAAAGGTGCT
CAAGTCTACAAAACCACACAAGAGTTGGCAAAGGAGTCAGAATTTGTTGTCACAATGCTT
CCTAATAATGATATCGTAAAAGAAACATATGAAGTCATGATTAAGGATGGTGTAAATAAC
AAAACAATGTTTGTCGATTCCTCAACAGTTGATCCATCAGTCTCACAGTATGTGCAAAAA
ATTGTATCTAAAGCTGGCGCCAGATTTGTTGACGCTCCAGTATCGGGAGGTGTCATGGGT
GCTCAGAATGCAACCTTGACTTTCATGGTTGGTGGTACAAAAGAGGAATACGAACATGTC
AAGGACTTTTTAGCCGGAATGGGAAAGAAAATTACACATTGTGGCACATATGGTATGGGT
GAAGCTGCTAAAATTTGCAATAACATGATGTTGGCTATCAGTATGATTGGAACAGCTGAA
ACGATGAATTTGGCATTACGCCTTGGTTTAGATGCAAAAGTATTTAATGAAATTATCAAC
TCATCAACGGGACGTTCATGGGCATCAGAAATTAATAATCCTGTGCCAGGACTCAATCCA
GGCACTCCACCAAGTGATGGCTATAAAGGCGGTTTCTCGACAGCACTCATTACCAAGGAC
TTGGGCTTGGCAAGCAGTGTCGCAACTGGCTCGAATTCTCCCATCATGCTTGGCGCCCTT
GCTCATCACATTTATCGTTTAATGTGTACCCACGATCTGGGCAATAAGGACTTTTCAGTT
ATATACGACTTCATTAAAAACAAGTCAGGAAAATAA

>g7588.t4 Gene=g7588 Length=257
MKAKGAQVYKTTQELAKESEFVVTMLPNNDIVKETYEVMIKDGVNNKTMFVDSSTVDPSV
SQYVQKIVSKAGARFVDAPVSGGVMGAQNATLTFMVGGTKEEYEHVKDFLAGMGKKITHC
GTYGMGEAAKICNNMMLAISMIGTAETMNLALRLGLDAKVFNEIINSSTGRSWASEINNP
VPGLNPGTPPSDGYKGGFSTALITKDLGLASSVATGSNSPIMLGALAHHIYRLMCTHDLG
NKDFSVIYDFIKNKSGK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g7588.t4 Gene3D G3DSA:3.40.50.12340 - 2 122 0
8 g7588.t4 Gene3D G3DSA:1.10.1040.10 - 124 257 0
3 g7588.t4 PANTHER PTHR22981 3-HYDROXYISOBUTYRATE DEHYDROGENASE-RELATED 3 255 0
4 g7588.t4 PANTHER PTHR22981:SF7 3-HYDROXYISOBUTYRATE DEHYDROGENASE, MITOCHONDRIAL 3 255 0
10 g7588.t4 PIRSF PIRSF000103 HIBADH 1 257 0
2 g7588.t4 Pfam PF03446 NAD binding domain of 6-phosphogluconate dehydrogenase 3 121 0
1 g7588.t4 Pfam PF14833 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase 124 250 0
5 g7588.t4 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 4 122 0
6 g7588.t4 SUPERFAMILY SSF48179 6-phosphogluconate dehydrogenase C-terminal domain-like 123 253 0
9 g7588.t4 TIGRFAM TIGR01692 HIBADH: 3-hydroxyisobutyrate dehydrogenase 2 251 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:0050661 NADP binding MF
GO:0008442 3-hydroxyisobutyrate dehydrogenase activity MF
GO:0051287 NAD binding MF
GO:0055114 NA NA
GO:0016491 oxidoreductase activity 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.

Raw TPM values