General information for g4621.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 g4621 is located on chr_2: 3657139..3658483 (- 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 | g4621 | g4621.t1 | isoform | g4621.t1 | 3657139 | 3658483 |
| chr_2 | g4621 | g4621.t1 | exon | g4621.t1.exon1 | 3657139 | 3657255 |
| chr_2 | g4621 | g4621.t1 | cds | g4621.t1.CDS1 | 3657139 | 3657255 |
| chr_2 | g4621 | g4621.t1 | exon | g4621.t1.exon2 | 3657315 | 3657517 |
| chr_2 | g4621 | g4621.t1 | cds | g4621.t1.CDS2 | 3657315 | 3657517 |
| chr_2 | g4621 | g4621.t1 | exon | g4621.t1.exon3 | 3657571 | 3657927 |
| chr_2 | g4621 | g4621.t1 | cds | g4621.t1.CDS3 | 3657571 | 3657927 |
| chr_2 | g4621 | g4621.t1 | exon | g4621.t1.exon4 | 3658038 | 3658160 |
| chr_2 | g4621 | g4621.t1 | cds | g4621.t1.CDS4 | 3658038 | 3658160 |
| chr_2 | g4621 | g4621.t1 | exon | g4621.t1.exon5 | 3658324 | 3658483 |
| chr_2 | g4621 | g4621.t1 | cds | g4621.t1.CDS5 | 3658324 | 3658483 |
| chr_2 | g4621 | g4621.t1 | TSS | g4621.t1 | NA | NA |
| chr_2 | g4621 | g4621.t1 | TTS | g4621.t1 | NA | NA |
Sequences
>g4621.t1 Gene=g4621 Length=960
ATGTTAAATACAATTTTGTGTCTAATTGGAGCTTATTCAGCATTCTTTTATTTCTATGAA
AATTTAAAATCACCAATAAAAATTATTTTTAGAACTTTGAAAAGTTTTATTTTGCCATTG
AAAGAGAGAAGTTTTAGTGAAAAATATGGTGAATGGGCAGTGATAACTGGATCATCTGAT
GGAATTGGCAAGCAATATGCAAAAGAATTAGCAAAGAAAGGAATGAAAATTGTTTTAATT
TCAAATGTTGAAAAAGATTTGATCAAAGTTAAAGAAGAAATTGAACAAGAACATTCAGTA
GAAGTAAAATATATTTTTGCAGACTTCAGCAAAGGAAAAGAAGTTTATGAAGAACTCAAA
AAAGAACTTTTATCACTTGATATTGGAATTCTTATCAATAATGTTGGAATTTTTCATGAA
TATCCAAATTATTTTGATTTAATTTCTGAAGAAATGATATGGAGGCTGTTATATGTCAAT
ATTGCAGCAACAACAATGATGTCAAGAATGATCATACCACAAATGAAGAGCAAGAAACGT
GGATTGATTGTTAATATTTCATCAGGTTCTGACAACCAACCGATTCCATTAATGGCAATT
TATAGCGCAAGTAAAGTTTTTGTTAAGTATTTCACATTGGCACTTCAAAAGGAACTTGAA
AAACAAAATGTTCAAGTTCAGCTAGTGACACCAATGTATGTGCGAACCAATATCAATCGC
TATTCAACATCTATCTTTGAAAAGAACTCATTGATTGCTGATGCAGAGTCATTTGTGAAA
TCTGCAGTATTTACATTAGGAAAAACATCACAAACCTCAGGCTATTGGATTCATGGTCTT
CAGATTGCTTTAATGAAACTTATACCACAAAGTGTGAGAACAATAATCGGTTATCGATTG
TCAAGGATGTATCGTCATGAATATCATGAGCAACAACAAAGAAAACACTTGAAAAAATAA
>g4621.t1 Gene=g4621 Length=319
MLNTILCLIGAYSAFFYFYENLKSPIKIIFRTLKSFILPLKERSFSEKYGEWAVITGSSD
GIGKQYAKELAKKGMKIVLISNVEKDLIKVKEEIEQEHSVEVKYIFADFSKGKEVYEELK
KELLSLDIGILINNVGIFHEYPNYFDLISEEMIWRLLYVNIAATTMMSRMIIPQMKSKKR
GLIVNISSGSDNQPIPLMAIYSASKVFVKYFTLALQKELEKQNVQVQLVTPMYVRTNINR
YSTSIFEKNSLIADAESFVKSAVFTLGKTSQTSGYWIHGLQIALMKLIPQSVRTIIGYRL
SRMYRHEYHEQQQRKHLKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g4621.t1 | CDD | cd05356 | 17beta-HSD1_like_SDR_c | 50 | 292 | 9.87719E-104 |
| 13 | g4621.t1 | Gene3D | G3DSA:3.40.50.720 | - | 44 | 286 | 1.2E-48 |
| 2 | g4621.t1 | PANTHER | PTHR43899:SF9 | MIP25013P-RELATED | 2 | 315 | 2.7E-120 |
| 3 | g4621.t1 | PANTHER | PTHR43899 | RH59310P | 2 | 315 | 2.7E-120 |
| 17 | g4621.t1 | PIRSF | PIRSF000126 | 11-beta-HSD1 | 3 | 313 | 9.1E-99 |
| 10 | g4621.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 52 | 69 | 6.3E-17 |
| 6 | g4621.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 126 | 137 | 3.5E-7 |
| 11 | g4621.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 126 | 137 | 6.3E-17 |
| 9 | g4621.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 175 | 191 | 6.3E-17 |
| 4 | g4621.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 181 | 189 | 3.5E-7 |
| 5 | g4621.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 201 | 220 | 3.5E-7 |
| 8 | g4621.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 201 | 220 | 6.3E-17 |
| 7 | g4621.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 222 | 239 | 6.3E-17 |
| 1 | g4621.t1 | Pfam | PF00106 | short chain dehydrogenase | 52 | 242 | 1.7E-44 |
| 15 | g4621.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 151 | - |
| 16 | g4621.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 152 | 172 | - |
| 14 | g4621.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 173 | 319 | - |
| 19 | g4621.t1 | ProSitePatterns | PS00061 | Short-chain dehydrogenases/reductases family signature. | 188 | 216 | - |
| 12 | g4621.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 50 | 308 | 9.93E-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 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