General information for g3532.t2
Yuki Yoshida
6/2/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative D-beta-hydroxybutyrate dehydrogenase, mitochondrial.
Parent gene
- The parent gene g3532 is located on chr_3: 26225591..26228690 (- 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_3 | g3532 | g3532.t2 | TTS | g3532.t2 | 26221773 | 26221773 |
| chr_3 | g3532 | g3532.t2 | isoform | g3532.t2 | 26222052 | 26222723 |
| chr_3 | g3532 | g3532.t2 | exon | g3532.t2.exon1 | 26222052 | 26222723 |
| chr_3 | g3532 | g3532.t2 | cds | g3532.t2.CDS1 | 26222052 | 26222723 |
| chr_3 | g3532 | g3532.t2 | TSS | g3532.t2 | NA | NA |
Sequences
>g3532.t2 Gene=g3532 Length=672
ATGCAAGAAGCTGCAAAGTTTATTGAAAACAATTTGCCTGATGGTGCAACTGGTTTATGG
GCATTATTGCATTGCGATCATTGGAATGCAATTGGTGAACTCGAATGGATTCCTCCAGCT
GTCTTGAAAAAATCCTTGGAAACTAATGTTGCTGGAACCGTACGCATTACTCAAATCTTT
TTGCCAATCATTCGTCGTGGCAAGGGACGTGTTGTTTATCTTTCATCAGCAATGTCAAAG
ATCTACAACCCAGTGCGTGGCATTCAAACAGCTATTAATAATGCTATTGAGAGCTTGGCT
CTATGTCTCCGTTCAGAAATGAGACGTCATGGTGTTCATGTTATTGTAGTTGCTGCAGGA
GAATTTGCTTCAGGCACCGCGTGGTTAGATAATGAAGATCTTTGTGAACAGGCAAAACTT
ATGTGGAAAAATATGAATGATTCATTAAGATTTGAAATTGTCGATGAAAAATATTTCGAG
TTCACTATTCGTCAATTGGAACGTTATACAAAAGTTACTGTTGATTTAACACCCGCCATT
CATACACTCATCGATGCCGTTCAAAAAGCTTTTCCTTTGCCACGATACACTCCCATTACT
TTCGAGGAAAAACTCAAGACACTTATTGCCGATTACATGCCTTATGCTGTTTATGATGTT
ATCTACAATTAA
>g3532.t2 Gene=g3532 Length=223
MQEAAKFIENNLPDGATGLWALLHCDHWNAIGELEWIPPAVLKKSLETNVAGTVRITQIF
LPIIRRGKGRVVYLSSAMSKIYNPVRGIQTAINNAIESLALCLRSEMRRHGVHVIVVAAG
EFASGTAWLDNEDLCEQAKLMWKNMNDSLRFEIVDEKYFEFTIRQLERYTKVTVDLTPAI
HTLIDAVQKAFPLPRYTPITFEEKLKTLIADYMPYAVYDVIYN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g3532.t2 | Gene3D | G3DSA:3.40.50.720 | - | 1 | 215 | 0 |
| 2 | g3532.t2 | PANTHER | PTHR43313:SF36 | GH26015P | 1 | 223 | 0 |
| 3 | g3532.t2 | PANTHER | PTHR43313 | SHORT-CHAIN DEHYDROGENASE/REDUCTASE FAMILY 9C | 1 | 223 | 0 |
| 1 | g3532.t2 | Pfam | PF00106 | short chain dehydrogenase | 37 | 128 | 0 |
| 4 | g3532.t2 | 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