General information for g16654.t2
Yuki Yoshida
6/2/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 17-beta-hydroxysteroid dehydrogenase 13.
Parent gene
- The parent gene g16654 is located on chr_4: 10414677..10415956 (- 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 | g16654 | g16654.t2 | TTS | g16654.t2 | 10414152 | 10414152 |
| chr_4 | g16654 | g16654.t2 | isoform | g16654.t2 | 10414221 | 10415882 |
| chr_4 | g16654 | g16654.t2 | exon | g16654.t2.exon1 | 10414221 | 10414664 |
| chr_4 | g16654 | g16654.t2 | cds | g16654.t2.CDS1 | 10414221 | 10414664 |
| chr_4 | g16654 | g16654.t2 | exon | g16654.t2.exon2 | 10415251 | 10415558 |
| chr_4 | g16654 | g16654.t2 | cds | g16654.t2.CDS2 | 10415251 | 10415558 |
| chr_4 | g16654 | g16654.t2 | exon | g16654.t2.exon3 | 10415633 | 10415882 |
| chr_4 | g16654 | g16654.t2 | cds | g16654.t2.CDS3 | 10415633 | 10415750 |
| chr_4 | g16654 | g16654.t2 | TSS | g16654.t2 | 10415963 | 10415963 |
Sequences
>g16654.t2 Gene=g16654 Length=1002
GACTTTAGAGCACAAAGATCTTCCCAACGATCACATGAAATCCATGGATGGTTAAAGCAC
ATAGGAAAACTAGGATTTCCATTGCAAATTCTTCTCAAATCATATCAATGTTTTGTTGTT
TGGTGTGATGTTATGACACTCATTATCAGATCTTATTTTGCAATTCTTCAGACAATTTTG
TGTTTTTTTATTCCTGTATCAAGAAAAAGTTTGAAGACTGAAGTTGCAGTTGTTGTTGGA
TCATCAAGAGGAGTTGGCAGAGAAATCGCTTACAAATTAAGTTCATTGAGAGCAACAGTA
GTATGCATAGACATTCAAGATCCAGATGATGAAACAGTTTCAAAAACAATCAGAGCTGAA
GGTGCAAATGCTTATTATTTTCAATGTGATATTTCAATTAGAGACCAAGTTGACATAACA
GTCAGCAGAATTGAAAAAGAAATTGGTGGAATTTCCATGCTTTATCATTGTTGCTCTCTA
CCTTCACCAAGATGTGTTTCTACTAATCCTCCTTCAGTTAAAGCAACTTTGGATGTTTCT
GTTACGAGCTATTTTTATTTACTCGATGCTATTCTTCCACATATGAAGACAAATAACAAA
GGTCATATTGTATTTCTTACGTCTGTTGCTGCGATTAGTGGATTTACACAGCAACTTGCA
TTAAGTGTATCACAATTCGCCATACAAGGTCTTTATGAGTCAATTGTTGAAGAATTAAGA
ATATCGAGATGTGATCAAATTATAAAAACAACTTTGGTTCATATTTATCCATTTATTGTC
AGTGAAAATTTCTCTAATGATATTCGATTTAGAGTTCCAGGATTTTTTGGTTCAATTCGA
GCTGATATTGCTGCTGAAAAAATTATTGATGGTGTAAGAATGAATGCAAGTGAAATAAGC
ATTCCAAGTTATTGTTTGTACATCAGTCATGTACTGAAAATTTTACCAAGAAAAGTAACT
TTAATGTTAAGAGAATTTCTTGATACTGGAGTTGATTTTTGA
>g16654.t2 Gene=g16654 Length=289
MTLIIRSYFAILQTILCFFIPVSRKSLKTEVAVVVGSSRGVGREIAYKLSSLRATVVCID
IQDPDDETVSKTIRAEGANAYYFQCDISIRDQVDITVSRIEKEIGGISMLYHCCSLPSPR
CVSTNPPSVKATLDVSVTSYFYLLDAILPHMKTNNKGHIVFLTSVAAISGFTQQLALSVS
QFAIQGLYESIVEELRISRCDQIIKTTLVHIYPFIVSENFSNDIRFRVPGFFGSIRADIA
AEKIIDGVRMNASEISIPSYCLYISHVLKILPRKVTLMLREFLDTGVDF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g16654.t2 | Gene3D | G3DSA:3.40.50.720 | - | 20 | 285 | 2.6E-40 |
| 2 | g16654.t2 | PANTHER | PTHR24322 | PKSB | 2 | 288 | 1.0E-58 |
| 3 | g16654.t2 | PANTHER | PTHR24322:SF730 | FI02989P-RELATED | 2 | 288 | 1.0E-58 |
| 6 | g16654.t2 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 31 | 48 | 6.1E-9 |
| 4 | g16654.t2 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 151 | 167 | 6.1E-9 |
| 5 | g16654.t2 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 177 | 196 | 6.1E-9 |
| 1 | g16654.t2 | Pfam | PF00106 | short chain dehydrogenase | 31 | 198 | 9.3E-31 |
| 11 | g16654.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 24 | - |
| 12 | g16654.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 8 | - |
| 13 | g16654.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 9 | 20 | - |
| 14 | g16654.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 21 | 24 | - |
| 10 | g16654.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 25 | 289 | - |
| 7 | g16654.t2 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 23 | 281 | 2.5E-35 |
| 8 | g16654.t2 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 24 | - |
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.
