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.t6 TTS g3532.t6 26221773 26221773
chr_3 g3532 g3532.t6 isoform g3532.t6 26222052 26226038
chr_3 g3532 g3532.t6 exon g3532.t6.exon1 26222052 26222723
chr_3 g3532 g3532.t6 cds g3532.t6.CDS1 26222052 26222723
chr_3 g3532 g3532.t6 exon g3532.t6.exon2 26222785 26222966
chr_3 g3532 g3532.t6 cds g3532.t6.CDS2 26222785 26222966
chr_3 g3532 g3532.t6 exon g3532.t6.exon3 26225539 26225806
chr_3 g3532 g3532.t6 cds g3532.t6.CDS3 26225539 26225806
chr_3 g3532 g3532.t6 exon g3532.t6.exon4 26226033 26226038
chr_3 g3532 g3532.t6 cds g3532.t6.CDS4 26226033 26226038
chr_3 g3532 g3532.t6 TSS g3532.t6 26226624 26226624

Sequences

>g3532.t6 Gene=g3532 Length=1128
ATGCAGGTCCCAAGACTAGAAAGACGTCGTGCTTCATTGCGCCATGAGTCATTGAGACGT
GGCAGCATCGTTCAACCCATTTCTAAAGAGGTGCCATGGGATATTTTTGATAGATTATTC
CTGCCAGTACTTTACTGTCATGCTATCGCCATCATTTTTAGTGCTGTCTTGCAAGTTTTT
GAAATTCAATTTGCCTTCTCAACATTTGGAATTTTTATACTCCTTTCAATAGCTACCGTC
ACGCTTACACTCTTCTATCACAATCTTAAGGTGATTTTAGTAACCGGCTGTGAAAATCCA
CTCGCTTGGTATTTATGCAAGAAACTCGATGAAATTGGTTTTTCCGTTTTTGCTGGATTC
AAGAATGTTGCCGATAATTCTGATGCTGAACTTCTTACTGAAGAATGCTCTGCTCGTGTA
CGACTTGTTCAAATTGATGCTTCATCTGATACTCAGATGCAAGAAGCTGCAAAGTTTATT
GAAAACAATTTGCCTGATGGTGCAACTGGTTTATGGGCATTATTGCATTGCGATCATTGG
AATGCAATTGGTGAACTCGAATGGATTCCTCCAGCTGTCTTGAAAAAATCCTTGGAAACT
AATGTTGCTGGAACCGTACGCATTACTCAAATCTTTTTGCCAATCATTCGTCGTGGCAAG
GGACGTGTTGTTTATCTTTCATCAGCAATGTCAAAGATCTACAACCCAGTGCGTGGCATT
CAAACAGCTATTAATAATGCTATTGAGAGCTTGGCTCTATGTCTCCGTTCAGAAATGAGA
CGTCATGGTGTTCATGTTATTGTAGTTGCTGCAGGAGAATTTGCTTCAGGCACCGCGTGG
TTAGATAATGAAGATCTTTGTGAACAGGCAAAACTTATGTGGAAAAATATGAATGATTCA
TTAAGATTTGAAATTGTCGATGAAAAATATTTCGAGTTCACTATTCGTCAATTGGAACGT
TATACAAAAGTTACTGTTGATTTAACACCCGCCATTCATACACTCATCGATGCCGTTCAA
AAAGCTTTTCCTTTGCCACGATACACTCCCATTACTTTCGAGGAAAAACTCAAGACACTT
ATTGCCGATTACATGCCTTATGCTGTTTATGATGTTATCTACAATTAA

>g3532.t6 Gene=g3532 Length=375
MQVPRLERRRASLRHESLRRGSIVQPISKEVPWDIFDRLFLPVLYCHAIAIIFSAVLQVF
EIQFAFSTFGIFILLSIATVTLTLFYHNLKVILVTGCENPLAWYLCKKLDEIGFSVFAGF
KNVADNSDAELLTEECSARVRLVQIDASSDTQMQEAAKFIENNLPDGATGLWALLHCDHW
NAIGELEWIPPAVLKKSLETNVAGTVRITQIFLPIIRRGKGRVVYLSSAMSKIYNPVRGI
QTAINNAIESLALCLRSEMRRHGVHVIVVAAGEFASGTAWLDNEDLCEQAKLMWKNMNDS
LRFEIVDEKYFEFTIRQLERYTKVTVDLTPAIHTLIDAVQKAFPLPRYTPITFEEKLKTL
IADYMPYAVYDVIYN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g3532.t6 Gene3D G3DSA:3.40.50.720 - 89 366 1.6E-32
2 g3532.t6 PANTHER PTHR43313:SF36 GH26015P 34 375 8.1E-90
3 g3532.t6 PANTHER PTHR43313 SHORT-CHAIN DEHYDROGENASE/REDUCTASE FAMILY 9C 34 375 8.1E-90
1 g3532.t6 Pfam PF00106 short chain dehydrogenase 90 280 2.2E-19
9 g3532.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 38 -
12 g3532.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 39 60 -
10 g3532.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 61 65 -
11 g3532.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 66 86 -
8 g3532.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 87 375 -
6 g3532.t6 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 90 282 1.52E-28
5 g3532.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 38 60 -
4 g3532.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 64 86 -

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