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.t5 TTS g7588.t5 24742066 24742066
chr_2 g7588 g7588.t5 isoform g7588.t5 24742231 24743704
chr_2 g7588 g7588.t5 exon g7588.t5.exon1 24742231 24742364
chr_2 g7588 g7588.t5 cds g7588.t5.CDS1 24742231 24742364
chr_2 g7588 g7588.t5 exon g7588.t5.exon2 24742440 24742767
chr_2 g7588 g7588.t5 cds g7588.t5.CDS2 24742440 24742767
chr_2 g7588 g7588.t5 exon g7588.t5.exon3 24742855 24743127
chr_2 g7588 g7588.t5 cds g7588.t5.CDS3 24742855 24743127
chr_2 g7588 g7588.t5 exon g7588.t5.exon4 24743579 24743704
chr_2 g7588 g7588.t5 cds g7588.t5.CDS4 24743579 24743704
chr_2 g7588 g7588.t5 TSS g7588.t5 24743809 24743809

Sequences

>g7588.t5 Gene=g7588 Length=861
ATGGCATTCCGTATAATAAAATTGACTCCAAATTTTGCACGCATGATGTCAACAAGTGCA
ACAAAAGTTGGGTTCATTGGTTTGGGACAAATGGGAAATCGTATGGCTACAAATCTAATC
AATAAGGGCTACAAATTGAATGTCTTTGATGTTTCACCAGAAGCATGTGATGCGATGAAA
GCAAAAGGTGCTCAAGTCTACAAAACCACACAAGAGTTGGCAAAGGAGTCAGAATTTGTT
GTCACAATGCTTCCTAATAATGATATCGTAAAAGAAACATATGAAGTCATGATTAAGGAT
GGTGTAAATAACAAAACAATGTTTGTCGATTCCTCAACAGTTGATCCATCAGTCTCACAG
TATGTGCAAAAAATTGTATCTAAAGCTGGCGCCAGATTTCATGTCAAGGACTTTTTAGCC
GGAATGGGAAAGAAAATTACACATTGTGGCACATATGGTATGGGTGAAGCTGCTAAAATT
TGCAATAACATGATGTTGGCTATCAGTATGATTGGAACAGCTGAAACGATGAATTTGGCA
TTACGCCTTGGTTTAGATGCAAAAGTATTTAATGAAATTATCAACTCATCAACGGGACGT
TCATGGGCATCAGAAATTAATAATCCTGTGCCAGGACTCAATCCAGGCACTCCACCAAGT
GATGGCTATAAAGGCGGTTTCTCGACAGCACTCATTACCAAGGACTTGGGCTTGGCAAGC
AGTGTCGCAACTGGCTCGAATTCTCCCATCATGCTTGGCGCCCTTGCTCATCACATTTAT
CGTTTAATGTGTACCCACGATCTGGGCAATAAGGACTTTTCAGTTATATACGACTTCATT
AAAAACAAGTCAGGAAAATAA

>g7588.t5 Gene=g7588 Length=286
MAFRIIKLTPNFARMMSTSATKVGFIGLGQMGNRMATNLINKGYKLNVFDVSPEACDAMK
AKGAQVYKTTQELAKESEFVVTMLPNNDIVKETYEVMIKDGVNNKTMFVDSSTVDPSVSQ
YVQKIVSKAGARFHVKDFLAGMGKKITHCGTYGMGEAAKICNNMMLAISMIGTAETMNLA
LRLGLDAKVFNEIINSSTGRSWASEINNPVPGLNPGTPPSDGYKGGFSTALITKDLGLAS
SVATGSNSPIMLGALAHHIYRLMCTHDLGNKDFSVIYDFIKNKSGK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g7588.t5 Gene3D G3DSA:3.40.50.720 - 17 151 3.9E-33
12 g7588.t5 Gene3D G3DSA:1.10.1040.10 - 153 286 6.5E-42
4 g7588.t5 PANTHER PTHR22981 3-HYDROXYISOBUTYRATE DEHYDROGENASE-RELATED 11 132 3.0E-91
6 g7588.t5 PANTHER PTHR22981:SF7 3-HYDROXYISOBUTYRATE DEHYDROGENASE, MITOCHONDRIAL 11 132 3.0E-91
3 g7588.t5 PANTHER PTHR22981 3-HYDROXYISOBUTYRATE DEHYDROGENASE-RELATED 135 284 3.0E-91
5 g7588.t5 PANTHER PTHR22981:SF7 3-HYDROXYISOBUTYRATE DEHYDROGENASE, MITOCHONDRIAL 135 284 3.0E-91
13 g7588.t5 PIRSF PIRSF000103 HIBADH 15 137 2.2E-32
14 g7588.t5 PIRSF PIRSF000103 HIBADH 133 286 7.3E-23
2 g7588.t5 Pfam PF03446 NAD binding domain of 6-phosphogluconate dehydrogenase 22 133 2.6E-27
1 g7588.t5 Pfam PF14833 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase 153 279 3.0E-29
9 g7588.t5 ProSitePatterns PS00895 3-hydroxyisobutyrate dehydrogenase signature. 25 38 -
7 g7588.t5 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 21 151 6.13E-26
8 g7588.t5 SUPERFAMILY SSF48179 6-phosphogluconate dehydrogenase C-terminal domain-like 152 282 1.59E-35
10 g7588.t5 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 15 -

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: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