General information for g8238.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 15-hydroxyprostaglandin dehydrogenase [NAD(+)].
Parent gene
- The parent gene g8238 is located on chr_2: 29219957..29221464 (+ 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_2 | g8238 | g8238.t1 | TSS | g8238.t1 | 29219880 | 29219880 |
| chr_2 | g8238 | g8238.t1 | isoform | g8238.t1 | 29219957 | 29221464 |
| chr_2 | g8238 | g8238.t1 | exon | g8238.t1.exon1 | 29219957 | 29220049 |
| chr_2 | g8238 | g8238.t1 | cds | g8238.t1.CDS1 | 29219957 | 29220049 |
| chr_2 | g8238 | g8238.t1 | exon | g8238.t1.exon2 | 29220116 | 29220239 |
| chr_2 | g8238 | g8238.t1 | cds | g8238.t1.CDS2 | 29220116 | 29220239 |
| chr_2 | g8238 | g8238.t1 | exon | g8238.t1.exon3 | 29220319 | 29220425 |
| chr_2 | g8238 | g8238.t1 | cds | g8238.t1.CDS3 | 29220319 | 29220425 |
| chr_2 | g8238 | g8238.t1 | exon | g8238.t1.exon4 | 29220485 | 29220658 |
| chr_2 | g8238 | g8238.t1 | cds | g8238.t1.CDS4 | 29220485 | 29220658 |
| chr_2 | g8238 | g8238.t1 | exon | g8238.t1.exon5 | 29221125 | 29221279 |
| chr_2 | g8238 | g8238.t1 | cds | g8238.t1.CDS5 | 29221125 | 29221279 |
| chr_2 | g8238 | g8238.t1 | exon | g8238.t1.exon6 | 29221344 | 29221464 |
| chr_2 | g8238 | g8238.t1 | cds | g8238.t1.CDS6 | 29221344 | 29221464 |
| chr_2 | g8238 | g8238.t1 | TTS | g8238.t1 | 29221661 | 29221661 |
Sequences
>g8238.t1 Gene=g8238 Length=774
ATGTTGTTAAAAGATAAAGTGTGCATAATTACTGGTGGGGCCGTTAATGTTGGTCGAGCA
TTTTGTGAACAGCTTTTGAAAAATGGAGCATTTATAGCGATTTTTGACTTAGACAGCGAT
ATTGGTGAACTTTGTTGCGCAGAATTAAAGCAACAATTCGGAAAAAATCGGATTATATTT
TGTCATTGTGATGTTACTGATTTCACACAATTTGAAGAGTCTTTTCAAATGACAAAGGAC
ACTTTTGGTAAGATTGATATTTTAGTGAATAATGCGGAAATATCAAATGATAAATTTTGG
GAATTGGAGACAGACGTTAATTTGAATGGGTTTATACGTGGTTCTCTTTTGGCATATCGA
TTTATGTCCAAGGACAAAGGAAATGAAGGTGGAACAATTGTAAATATCGGCAGTTCTTGT
AGTGTTAAACCATTTATATCATCACCAATCTATTGTGCTACAAAACATGCAATTGTTGGA
TTGACAAAAGCTTATGGGAATGATTATCATTATAATTTAACCGGTGTAAGGGTTATATGC
TATTGTGTTGGACCGACAGAGTCAGATTTTAGCTCACATAGTCGCCAAAACAACAATACA
CCAAACCATGAGCGAGCAAGAAATATTGACATGCAAGGAATACGTTATCAAAAATTGGAT
CATGTTGCAAAAGAGCTTATTACAGTCTTATTGAATGCATCATCTGGAAGCCTCTGGATT
GTTCGAAACGATGAAAAACCAAGCGAATTTCCTTTCTCAAATGAATTATTCTAA
>g8238.t1 Gene=g8238 Length=257
MLLKDKVCIITGGAVNVGRAFCEQLLKNGAFIAIFDLDSDIGELCCAELKQQFGKNRIIF
CHCDVTDFTQFEESFQMTKDTFGKIDILVNNAEISNDKFWELETDVNLNGFIRGSLLAYR
FMSKDKGNEGGTIVNIGSSCSVKPFISSPIYCATKHAIVGLTKAYGNDYHYNLTGVRVIC
YCVGPTESDFSSHSRQNNNTPNHERARNIDMQGIRYQKLDHVAKELITVLLNASSGSLWI
VRNDEKPSEFPFSNELF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g8238.t1 | Gene3D | G3DSA:3.40.50.720 | - | 2 | 249 | 1.7E-54 |
| 2 | g8238.t1 | PANTHER | PTHR44229 | 15-HYDROXYPROSTAGLANDIN DEHYDROGENASE [NAD(+)] | 3 | 254 | 1.3E-69 |
| 3 | g8238.t1 | PANTHER | PTHR44229:SF4 | 15-HYDROXYPROSTAGLANDIN DEHYDROGENASE [NAD(+)] | 3 | 254 | 1.3E-69 |
| 10 | g8238.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 7 | 24 | 1.5E-18 |
| 6 | g8238.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 83 | 94 | 1.5E-9 |
| 9 | g8238.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 83 | 94 | 1.5E-18 |
| 8 | g8238.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 125 | 141 | 1.5E-18 |
| 5 | g8238.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 131 | 139 | 1.5E-9 |
| 4 | g8238.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 151 | 170 | 1.5E-9 |
| 7 | g8238.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 151 | 170 | 1.5E-18 |
| 11 | g8238.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 174 | 191 | 1.5E-18 |
| 1 | g8238.t1 | Pfam | PF00106 | short chain dehydrogenase | 6 | 197 | 9.8E-39 |
| 13 | g8238.t1 | ProSitePatterns | PS00061 | Short-chain dehydrogenases/reductases family signature. | 138 | 166 | - |
| 12 | g8238.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 2 | 235 | 4.44E-46 |
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:0055114 | NA | NA |
| GO:0016491 | oxidoreductase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00069 (15-hydroxyprostaglandin dehydrogenase (NAD))
Pathway
- This transcript belongs to the following pathways
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.
