General information for g4622.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Hydroxysteroid dehydrogenase-like protein 1.
Parent gene
- The parent gene g4622 is located on chr_2: 3658693..3660327 (- 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 | g4622 | g4622.t1 | TTS | g4622.t1 | 3658632 | 3658632 |
| chr_2 | g4622 | g4622.t1 | isoform | g4622.t1 | 3658693 | 3660327 |
| chr_2 | g4622 | g4622.t1 | exon | g4622.t1.exon1 | 3658693 | 3658797 |
| chr_2 | g4622 | g4622.t1 | cds | g4622.t1.CDS1 | 3658693 | 3658797 |
| chr_2 | g4622 | g4622.t1 | exon | g4622.t1.exon2 | 3658855 | 3659057 |
| chr_2 | g4622 | g4622.t1 | cds | g4622.t1.CDS2 | 3658855 | 3659057 |
| chr_2 | g4622 | g4622.t1 | exon | g4622.t1.exon3 | 3659118 | 3659474 |
| chr_2 | g4622 | g4622.t1 | cds | g4622.t1.CDS3 | 3659118 | 3659474 |
| chr_2 | g4622 | g4622.t1 | exon | g4622.t1.exon4 | 3659585 | 3659707 |
| chr_2 | g4622 | g4622.t1 | cds | g4622.t1.CDS4 | 3659585 | 3659707 |
| chr_2 | g4622 | g4622.t1 | exon | g4622.t1.exon5 | 3659841 | 3659879 |
| chr_2 | g4622 | g4622.t1 | cds | g4622.t1.CDS5 | 3659841 | 3659879 |
| chr_2 | g4622 | g4622.t1 | exon | g4622.t1.exon6 | 3660312 | 3660327 |
| chr_2 | g4622 | g4622.t1 | cds | g4622.t1.CDS6 | 3660312 | 3660327 |
| chr_2 | g4622 | g4622.t1 | TSS | g4622.t1 | NA | NA |
Sequences
>g4622.t1 Gene=g4622 Length=843
ATGTCTCTTGATTTTGAAAGAAAAAGTTTTAGTGAAAAATATGGTGAATGGGCAGTGATA
ACTGGATCATCTGATGGAATTGGCAAGCAATATGCAAAAGAATTAGCAAAGAAAGGAATG
AAAATTGTTTTGATTTCAAATGTTGAAAAAGATTTGATCAAAGTTAAAGAAGAAATTGAA
CAAGAACATTCAGTAGAAGTAAAATATATTTTTGCAGACTTCAGTAAAGGAAAAGAAGTT
TATGAAGAACTCAAAAAAGAACTTTTATCACTTGATATTGGAATTCTTATCAATAATGTT
GGAATTTTTCATGAATATCCAAATTATTTTGATTTAATTTCTGAAGATTTAATTTGGAAA
CTTTTAGAAATTAACGTTAAAGCAACAACAATGATGTCAAGAATGATTATTCCACAAATG
AAGAGCAAGAAACGTGGATTGATCATTAATATTTCATCAGTTATCGCCACTTGTCCTATG
CCTTTAGCTACTATTTATTCAGCTAGTAAACTTTATGTTCACTTCTTTACTTTAGCACTT
CGAAAAGAACTCGAAAAATATGGAGTTCAAGTTCAACTTATTTCACCTTCATTAGTTGCA
ACTAAAATTAACAGTTTCTCAAAATTCCTAGAAACAAAGAGTTTTATTATACCAGACGCA
GAAACTTTTGCAAAAAATGCAGTTTTTACTTTTGGTAAAACATCTCAAACGACTGGTTAT
TGGAAACATGCACTTTTGGCGGCTTTTTGTAAATTAGGTTCACAAGCAATGAACACATTT
TGCTTTCATGAAGTAGGAAAAATAGTCAGAGAAGAATATTTGAGAAACAAAAAAACATCA
TGA
>g4622.t1 Gene=g4622 Length=280
MSLDFERKSFSEKYGEWAVITGSSDGIGKQYAKELAKKGMKIVLISNVEKDLIKVKEEIE
QEHSVEVKYIFADFSKGKEVYEELKKELLSLDIGILINNVGIFHEYPNYFDLISEDLIWK
LLEINVKATTMMSRMIIPQMKSKKRGLIINISSVIATCPMPLATIYSASKLYVHFFTLAL
RKELEKYGVQVQLISPSLVATKINSFSKFLETKSFIIPDAETFAKNAVFTFGKTSQTTGY
WKHALLAAFCKLGSQAMNTFCFHEVGKIVREEYLRNKKTS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g4622.t1 | CDD | cd05356 | 17beta-HSD1_like_SDR_c | 15 | 252 | 8.94354E-103 |
| 13 | g4622.t1 | Gene3D | G3DSA:3.40.50.720 | - | 9 | 251 | 1.3E-49 |
| 2 | g4622.t1 | PANTHER | PTHR43899:SF9 | MIP25013P-RELATED | 6 | 278 | 1.3E-105 |
| 3 | g4622.t1 | PANTHER | PTHR43899 | RH59310P | 6 | 278 | 1.3E-105 |
| 17 | g4622.t1 | PIRSF | PIRSF000126 | 11-beta-HSD1 | 1 | 276 | 1.2E-93 |
| 9 | g4622.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 17 | 34 | 7.0E-19 |
| 6 | g4622.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 91 | 102 | 3.3E-8 |
| 10 | g4622.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 91 | 102 | 7.0E-19 |
| 11 | g4622.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 140 | 156 | 7.0E-19 |
| 5 | g4622.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 146 | 154 | 3.3E-8 |
| 4 | g4622.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 166 | 185 | 3.3E-8 |
| 7 | g4622.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 166 | 185 | 7.0E-19 |
| 8 | g4622.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 187 | 204 | 7.0E-19 |
| 1 | g4622.t1 | Pfam | PF00106 | short chain dehydrogenase | 17 | 205 | 7.2E-45 |
| 14 | g4622.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 146 | - |
| 16 | g4622.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 147 | 168 | - |
| 15 | g4622.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 169 | 280 | - |
| 20 | g4622.t1 | ProSitePatterns | PS00061 | Short-chain dehydrogenases/reductases family signature. | 153 | 181 | - |
| 12 | g4622.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 15 | 248 | 7.08E-47 |
| 19 | g4622.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 146 | 168 | - |
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 K10251 (17beta-estradiol 17-dehydrogenase / very-long-chain 3-oxoacyl-CoA reductase)
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. There were no conditions that were differentially expressed