General information for g17275.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Estradiol 17-beta-dehydrogenase 2.
Parent gene
- The parent gene g17275 is located on chr_4: 13006837..13007949 (- 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_4 | g17275 | g17275.t1 | TTS | g17275.t1 | 13006765 | 13006765 |
| chr_4 | g17275 | g17275.t1 | isoform | g17275.t1 | 13006837 | 13007949 |
| chr_4 | g17275 | g17275.t1 | exon | g17275.t1.exon1 | 13006837 | 13007501 |
| chr_4 | g17275 | g17275.t1 | cds | g17275.t1.CDS1 | 13006837 | 13007501 |
| chr_4 | g17275 | g17275.t1 | exon | g17275.t1.exon2 | 13007565 | 13007949 |
| chr_4 | g17275 | g17275.t1 | cds | g17275.t1.CDS2 | 13007565 | 13007949 |
| chr_4 | g17275 | g17275.t1 | TSS | g17275.t1 | 13008101 | 13008101 |
Sequences
>g17275.t1 Gene=g17275 Length=1050
ATGATTGAGGACGCAATGTTGCTCAAACGACCAGATTTTTATAGTTTTGTTAAGTTTGCT
GGATTGTCAACCTTTAGTGGTCTTGTTACACATTATCTCATGAATCCAGTTGAAAAAAAA
CTTGTTGATGAAAGAAATGTCCTAATTGCAACTGGATGTGATTCTGGATTAGGCTATAGC
ATTGCCATTCACTGTCATGAGAAATTAAACATCTCAGTCATTGCTTGTGTTCAACATTTG
AAAAGTCCTGGAGCTGAAAAATTAAGAAATATGTTTGAGAAATCAAAAAGATTTCATTTG
GTTGAATTGGAAATTACTAAAGATGATAGCATTGACAATGTGAGGAAATACGTTCAAAAC
TTCTTTGAAAGAAACGAAGATTTGGAATTCACAGCTCTGGTCAATAACTGTGGCATAATG
ATTTTTGGTGAAACAGAATGGCTAACAAATCGAATGATTGAATCACAAATTAATGTAAAT
CTCCTTGGTACAATGAAACTGACTCATGCAATGCTGCCACTAGCGAGACGCTATCATACT
CGCATCATAAATGTCACAAGCCACTGTGGCATTCAATGTCTTCCAACACTTGCAATTTAT
GGTGCAACAAAAGCCGGTCTTGCATCATTTACTGAATGTTTAAGAATGGAAATGAAACCG
CATGGTGTTGATGTTGTCAATTTTATTCCTGGATCTTTTTGGAAAAATTCAAATTTGGCT
TCAGCACAATTGAAACATTCAATGGAAATGAAAGAAAATTTCAGTGAAGAACAGTTGAAT
TATTATGGTGATCATTTTGACCGTATGAGTCTTCACCTTTCTGCATTGTCTGGTGAACGT
TCTCCATCGCTACTTGAGGATGAAAATATTATGAGAACTTTTGAGGAAGCACTGCTTGAA
GTTCCAGCTAAAAGCAGATATATTTGTGAACCATGGAGATACAAATGGTATCATTTTCTG
TTTAAAATCACACCAACAAATGTTCGTGATTGGCTGGTGAAGAAATTTACAGCTTTGCCA
CAATTTGAACCAAAAGCTATTAAAAATTAG
>g17275.t1 Gene=g17275 Length=349
MIEDAMLLKRPDFYSFVKFAGLSTFSGLVTHYLMNPVEKKLVDERNVLIATGCDSGLGYS
IAIHCHEKLNISVIACVQHLKSPGAEKLRNMFEKSKRFHLVELEITKDDSIDNVRKYVQN
FFERNEDLEFTALVNNCGIMIFGETEWLTNRMIESQINVNLLGTMKLTHAMLPLARRYHT
RIINVTSHCGIQCLPTLAIYGATKAGLASFTECLRMEMKPHGVDVVNFIPGSFWKNSNLA
SAQLKHSMEMKENFSEEQLNYYGDHFDRMSLHLSALSGERSPSLLEDENIMRTFEEALLE
VPAKSRYICEPWRYKWYHFLFKITPTNVRDWLVKKFTALPQFEPKAIKN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g17275.t1 | Gene3D | G3DSA:3.40.50.720 | - | 46 | 322 | 6.2E-46 |
| 2 | g17275.t1 | PANTHER | PTHR43313:SF39 | SHORT-CHAIN DEHYDROGENASE/REDUCTASE | 42 | 344 | 2.7E-109 |
| 3 | g17275.t1 | PANTHER | PTHR43313 | SHORT-CHAIN DEHYDROGENASE/REDUCTASE FAMILY 9C | 42 | 344 | 2.7E-109 |
| 7 | g17275.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 47 | 64 | 4.2E-11 |
| 5 | g17275.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 128 | 139 | 1.6E-5 |
| 9 | g17275.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 128 | 139 | 4.2E-11 |
| 8 | g17275.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 174 | 190 | 4.2E-11 |
| 4 | g17275.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 180 | 188 | 1.6E-5 |
| 6 | g17275.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 200 | 219 | 1.6E-5 |
| 10 | g17275.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 200 | 219 | 4.2E-11 |
| 1 | g17275.t1 | Pfam | PF00106 | short chain dehydrogenase | 47 | 233 | 5.4E-32 |
| 14 | g17275.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 16 | g17275.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 34 | - |
| 15 | g17275.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 35 | 349 | - |
| 12 | g17275.t1 | ProSitePatterns | PS00061 | Short-chain dehydrogenases/reductases family signature. | 187 | 215 | - |
| 11 | g17275.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 46 | 247 | 2.12E-36 |
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 K00019 (3-hydroxybutyrate dehydrogenase)
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.
