Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative D-beta-hydroxybutyrate 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_3 g3532 g3532.t16 TTS g3532.t16 26221773 26221773
chr_3 g3532 g3532.t16 isoform g3532.t16 26222052 26226624
chr_3 g3532 g3532.t16 exon g3532.t16.exon1 26222052 26222723
chr_3 g3532 g3532.t16 cds g3532.t16.CDS1 26222052 26222723
chr_3 g3532 g3532.t16 exon g3532.t16.exon2 26222785 26222988
chr_3 g3532 g3532.t16 exon g3532.t16.exon3 26225543 26225651
chr_3 g3532 g3532.t16 exon g3532.t16.exon4 26225755 26225806
chr_3 g3532 g3532.t16 exon g3532.t16.exon5 26226033 26226264
chr_3 g3532 g3532.t16 exon g3532.t16.exon6 26226546 26226624
chr_3 g3532 g3532.t16 TSS g3532.t16 26226624 26226624

Sequences

>g3532.t16 Gene=g3532 Length=1348
AGTAGGTTTTTAAATTTTGAGTCGAGCGGTTCTTTAAAACCATAACTCGCAAAAGCCGAA
GAAAATAAATAGTGACAGACATCATACTCTACTCTATAAAAATAATTTACTTTTTCGCTG
TGGATAAGCAGAGAAAAGAAAGAAATTTTTTTTTGGAAAATTTCAAAGAGAAGAAAATAA
ATTGAACTCGTAAATAATAATAAGAATAAGAGTGAAATTGGCTCATCGCGTGTGTGTATT
TTATTTTTGAACCCTGTCTGTGGAAAAAAGCTATTCGCTCAGTGTAAAATTAACTGACCG
GCGAAATGCAGGTCCCAAGACTAGAAAGACGTCGTGCTTCATTGCGCCATGAGTCATTGA
GACTGCTGTCTTGCAAGTTTTTGAAATTCAATTTGCCTTCTCAACATTTGGAATTTTTAT
ACTCCTTTCAATAGCTACCGTCACGCTTACACTCTTCTATCACAATCTTAAGGTTTCGGC
ATCTGGAAAAGCAGTTTTAGTAACCGGCTGTGAAAATCCACTCGCTTGGTATTTATGCAA
GAAACTCGATGAAATTGGTTTTTCCGTTTTTGCTGGATTCAAGAATGTTGCCGATAATTC
TGATGCTGAACTTCTTACTGAAGAATGCTCTGCTCGTGTACGACTTGTTCAAATTGATGC
TTCATCTGATACTCAGATGCAAGAAGCTGCAAAGTTTATTGAAAACAATTTGCCTGATGG
TGCAACTGGTTTATGGGCATTATTGCATTGCGATCATTGGAATGCAATTGGTGAACTCGA
ATGGATTCCTCCAGCTGTCTTGAAAAAATCCTTGGAAACTAATGTTGCTGGAACCGTACG
CATTACTCAAATCTTTTTGCCAATCATTCGTCGTGGCAAGGGACGTGTTGTTTATCTTTC
ATCAGCAATGTCAAAGATCTACAACCCAGTGCGTGGCATTCAAACAGCTATTAATAATGC
TATTGAGAGCTTGGCTCTATGTCTCCGTTCAGAAATGAGACGTCATGGTGTTCATGTTAT
TGTAGTTGCTGCAGGAGAATTTGCTTCAGGCACCGCGTGGTTAGATAATGAAGATCTTTG
TGAACAGGCAAAACTTATGTGGAAAAATATGAATGATTCATTAAGATTTGAAATTGTCGA
TGAAAAATATTTCGAGTTCACTATTCGTCAATTGGAACGTTATACAAAAGTTACTGTTGA
TTTAACACCCGCCATTCATACACTCATCGATGCCGTTCAAAAAGCTTTTCCTTTGCCACG
ATACACTCCCATTACTTTCGAGGAAAAACTCAAGACACTTATTGCCGATTACATGCCTTA
TGCTGTTTATGATGTTATCTACAATTAA

>g3532.t16 Gene=g3532 Length=223
MQEAAKFIENNLPDGATGLWALLHCDHWNAIGELEWIPPAVLKKSLETNVAGTVRITQIF
LPIIRRGKGRVVYLSSAMSKIYNPVRGIQTAINNAIESLALCLRSEMRRHGVHVIVVAAG
EFASGTAWLDNEDLCEQAKLMWKNMNDSLRFEIVDEKYFEFTIRQLERYTKVTVDLTPAI
HTLIDAVQKAFPLPRYTPITFEEKLKTLIADYMPYAVYDVIYN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g3532.t16 Gene3D G3DSA:3.40.50.720 - 1 215 0
2 g3532.t16 PANTHER PTHR43313:SF36 GH26015P 1 223 0
3 g3532.t16 PANTHER PTHR43313 SHORT-CHAIN DEHYDROGENASE/REDUCTASE FAMILY 9C 1 223 0
1 g3532.t16 Pfam PF00106 short chain dehydrogenase 37 128 0
4 g3532.t16 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 18 130 0

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

## [1] "No matching GO terms"

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