General information for g4623.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Inactive hydroxysteroid dehydrogenase-like protein 1.
Parent gene
- The parent gene g4623 is located on chr_2: 3661309..3662176 (- 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 | g4623 | g4623.t1 | TTS | g4623.t1 | 3660496 | 3660496 |
| chr_2 | g4623 | g4623.t1 | isoform | g4623.t1 | 3660633 | 3662176 |
| chr_2 | g4623 | g4623.t1 | exon | g4623.t1.exon1 | 3660633 | 3660737 |
| chr_2 | g4623 | g4623.t1 | cds | g4623.t1.CDS1 | 3660633 | 3660737 |
| chr_2 | g4623 | g4623.t1 | exon | g4623.t1.exon2 | 3660797 | 3660993 |
| chr_2 | g4623 | g4623.t1 | cds | g4623.t1.CDS2 | 3660797 | 3660993 |
| chr_2 | g4623 | g4623.t1 | exon | g4623.t1.exon3 | 3661050 | 3661406 |
| chr_2 | g4623 | g4623.t1 | cds | g4623.t1.CDS3 | 3661050 | 3661406 |
| chr_2 | g4623 | g4623.t1 | exon | g4623.t1.exon4 | 3661462 | 3661584 |
| chr_2 | g4623 | g4623.t1 | cds | g4623.t1.CDS4 | 3661462 | 3661584 |
| chr_2 | g4623 | g4623.t1 | exon | g4623.t1.exon5 | 3662017 | 3662176 |
| chr_2 | g4623 | g4623.t1 | cds | g4623.t1.CDS5 | 3662017 | 3662176 |
| chr_2 | g4623 | g4623.t1 | TSS | g4623.t1 | 3662315 | 3662315 |
Sequences
>g4623.t1 Gene=g4623 Length=942
ATGTTTGAAACATTTTTAATTTGTGTTGGTATTTATGCCACAATTTGGTATTTGTATGAA
AATTTATCATCACCTATTTTGATAATTGTCAATACTCTATTGGAACTTTTTATTCCTTCA
AAGAAGAAAAGTTTTAAGGAAAAATATGGTGAATGGGCAGTTGTTACTGGCGCAACTGAT
GGCATTGGTAAGCAATATGCAAAGGAACTAGCAAAACATGGCATGAATATCGTTCTAATC
TCAAGAACTGAGTCAAAATTGATTGAAGTCGCTAAAGAAATTGAGTCAATGTACTCGGTA
AAGACAAAGTATGTGGCTGTTGACTTTGGCAATGGCAAAAAAATCTATGAAAAAATAAAA
GAAGAATTAAAGTCAATGGATATTGGAATATTGGTTAATAATGTTGGATCATTTCATGAA
TATCCAGAATATCTTGATAAAATATCAGAAGATACTTTATGGTCGATAATGAATATTAAT
GTTGGGGCAATTACAATGATGTCAAGAATGATAATTCCACAAATGAAAGCAAATAAAAGA
GGAATGATTGTAAATTTATCATCAGGCACTCAAACTCAACCAATGCCATTGATGACTATT
TATGCAGCAAGTAAAATTTATGTTACTAATTTCACTTTAGCACTTCAAAAAGAACTCAAA
AAGTACAATGTTGAAGTTCAGTTATTATCACCTATGTTTGTTAAAACTAAAATGTTAAAT
TCAGACAGATTAAATGAAAATCCATTTGTCACAAATGTGGAAAAGTATACTCGACATGCT
GTGTTTACACTTGGAAAAAGTTCACAAACAACCGGCTATTGGGAACATGCAATTCAAGTT
GCATTTATTAAAATTGTTCCACAAGTTTTAAGAACACAATGTGCATGGATCACAGCAAGA
TTTATGAAGGCAGAATATCTTCAGAAACAAAAACTGTCATAA
>g4623.t1 Gene=g4623 Length=313
MFETFLICVGIYATIWYLYENLSSPILIIVNTLLELFIPSKKKSFKEKYGEWAVVTGATD
GIGKQYAKELAKHGMNIVLISRTESKLIEVAKEIESMYSVKTKYVAVDFGNGKKIYEKIK
EELKSMDIGILVNNVGSFHEYPEYLDKISEDTLWSIMNINVGAITMMSRMIIPQMKANKR
GMIVNLSSGTQTQPMPLMTIYAASKIYVTNFTLALQKELKKYNVEVQLLSPMFVKTKMLN
SDRLNENPFVTNVEKYTRHAVFTLGKSSQTTGYWEHAIQVAFIKIVPQVLRTQCAWITAR
FMKAEYLQKQKLS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g4623.t1 | CDD | cd05356 | 17beta-HSD1_like_SDR_c | 50 | 287 | 1.46238E-110 |
| 13 | g4623.t1 | Gene3D | G3DSA:3.40.50.720 | - | 44 | 289 | 9.1E-53 |
| 2 | g4623.t1 | PANTHER | PTHR43899:SF9 | MIP25013P-RELATED | 2 | 311 | 3.2E-122 |
| 3 | g4623.t1 | PANTHER | PTHR43899 | RH59310P | 2 | 311 | 3.2E-122 |
| 17 | g4623.t1 | PIRSF | PIRSF000126 | 11-beta-HSD1 | 3 | 311 | 4.2E-101 |
| 10 | g4623.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 52 | 69 | 3.4E-16 |
| 6 | g4623.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 126 | 137 | 1.3E-6 |
| 11 | g4623.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 126 | 137 | 3.4E-16 |
| 9 | g4623.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 175 | 191 | 3.4E-16 |
| 4 | g4623.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 181 | 189 | 1.3E-6 |
| 5 | g4623.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 201 | 220 | 1.3E-6 |
| 8 | g4623.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 201 | 220 | 3.4E-16 |
| 7 | g4623.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 222 | 239 | 3.4E-16 |
| 1 | g4623.t1 | Pfam | PF00106 | short chain dehydrogenase | 52 | 244 | 4.1E-44 |
| 15 | g4623.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 21 | - |
| 16 | g4623.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 22 | 38 | - |
| 14 | g4623.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 39 | 313 | - |
| 19 | g4623.t1 | ProSitePatterns | PS00061 | Short-chain dehydrogenases/reductases family signature. | 188 | 216 | - |
| 12 | g4623.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 49 | 303 | 1.07E-49 |
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 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. There were no conditions that were differentially expressed