General information for g4625.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 g4625 is located on chr_2: 3670585..3671298 (- 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 | g4625 | g4625.t1 | TTS | g4625.t1 | 3666810 | 3666810 |
| chr_2 | g4625 | g4625.t1 | isoform | g4625.t1 | 3667211 | 3671298 |
| chr_2 | g4625 | g4625.t1 | exon | g4625.t1.exon1 | 3667211 | 3667312 |
| chr_2 | g4625 | g4625.t1 | cds | g4625.t1.CDS1 | 3667211 | 3667312 |
| chr_2 | g4625 | g4625.t1 | exon | g4625.t1.exon2 | 3667369 | 3667928 |
| chr_2 | g4625 | g4625.t1 | cds | g4625.t1.CDS2 | 3667369 | 3667928 |
| chr_2 | g4625 | g4625.t1 | exon | g4625.t1.exon3 | 3667984 | 3668106 |
| chr_2 | g4625 | g4625.t1 | cds | g4625.t1.CDS3 | 3667984 | 3668106 |
| chr_2 | g4625 | g4625.t1 | exon | g4625.t1.exon4 | 3671091 | 3671298 |
| chr_2 | g4625 | g4625.t1 | cds | g4625.t1.CDS4 | 3671091 | 3671298 |
| chr_2 | g4625 | g4625.t1 | TSS | g4625.t1 | 3671535 | 3671535 |
Sequences
>g4625.t1 Gene=g4625 Length=993
ATGGAATCTTTATTTCAAATGATTACCAATGTAGTATTTAATGCGAATGTGCCATTATAT
TTAATTGCTTTAATTGGAGCATGGGCTTTAATATGGTGGACATATGATAATTTTAAATCA
GTGATACAAATTATTAAAAGCATTCTAACACCATACTTTCAGCCTAATGAAAATAAAGGC
TTTGTTGAAAAATATGGAAAATGGGCAGTTATTACTGGTGCAACTGATGGCATTGGTAAG
CAATATTCTAAAGAACTAGCAAAACATGGCATGAATATCGTTCTAATCTCAAGAACTGAG
TCAAAATTGATTGAAGTCGCTAAAGAAATCGAGTCAATGTACTCGGTAAAGACAAAGTAT
GTGGCTGTTGACTTTGGCAATGGCAAAGAAATCTATGAAAAAATAAAAGAAGAATTAAAG
TCAATGGACATTGGTGTGCTGGTCAATAATGTTGGACGAATGTATGATTTTCCAGACGAT
TTAGATCACATTTCGGAAGAACTTTTATGGCAAATTATCAATATTAATATTGGTGCAGTT
ACAATGATGTCAAGAATTTTTATTCCACAAATGAAAGCAAATCAACGAGGAATGATTGTC
AACATTTCATCAGGTTCAGAATGTCAACCAACTCCATTGATGACTGTTTATGCATCATCT
AAAGTTTATATTAGAAATTTCACATTAGCATTAAGAAAAGAACTTGAAGAACACAATGTA
CAAGTACAGTTGGTGACACCAATGTTTGTGCAGACCAAAATGAACAATTATTCAACATCT
GTGATGAAAGGAAGCATCTTAGTGCCAGATGTTGAGTCATATACACGCTCAGCTGTTTTT
ACATTAGGAAAAAGCTCGCAAACAAATGGATATTGGAGTCATGGTCTTCAATATGGCTGT
ATGAAGCTTGTGCCAGAGTTTATTAGGACTTGCGTCTCGTTTAGAATGAACAAAAAATTC
AGAGATGAATATTATGCACAACAAACGATATGA
>g4625.t1 Gene=g4625 Length=330
MESLFQMITNVVFNANVPLYLIALIGAWALIWWTYDNFKSVIQIIKSILTPYFQPNENKG
FVEKYGKWAVITGATDGIGKQYSKELAKHGMNIVLISRTESKLIEVAKEIESMYSVKTKY
VAVDFGNGKEIYEKIKEELKSMDIGVLVNNVGRMYDFPDDLDHISEELLWQIININIGAV
TMMSRIFIPQMKANQRGMIVNISSGSECQPTPLMTVYASSKVYIRNFTLALRKELEEHNV
QVQLVTPMFVQTKMNNYSTSVMKGSILVPDVESYTRSAVFTLGKSSQTNGYWSHGLQYGC
MKLVPEFIRTCVSFRMNKKFRDEYYAQQTI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g4625.t1 | CDD | cd05356 | 17beta-HSD1_like_SDR_c | 66 | 308 | 6.73274E-114 |
| 13 | g4625.t1 | Gene3D | G3DSA:3.40.50.720 | - | 61 | 293 | 1.1E-51 |
| 2 | g4625.t1 | PANTHER | PTHR43899:SF9 | MIP25013P-RELATED | 19 | 328 | 2.2E-132 |
| 3 | g4625.t1 | PANTHER | PTHR43899 | RH59310P | 19 | 328 | 2.2E-132 |
| 19 | g4625.t1 | PIRSF | PIRSF000126 | 11-beta-HSD1 | 19 | 327 | 4.6E-108 |
| 10 | g4625.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 68 | 85 | 1.5E-15 |
| 5 | g4625.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 142 | 153 | 4.6E-6 |
| 9 | g4625.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 142 | 153 | 1.5E-15 |
| 8 | g4625.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 191 | 207 | 1.5E-15 |
| 6 | g4625.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 197 | 205 | 4.6E-6 |
| 4 | g4625.t1 | PRINTS | PR00080 | Short-chain dehydrogenase/reductase (SDR) superfamily signature | 217 | 236 | 4.6E-6 |
| 7 | g4625.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 217 | 236 | 1.5E-15 |
| 11 | g4625.t1 | PRINTS | PR00081 | Glucose/ribitol dehydrogenase family signature | 238 | 255 | 1.5E-15 |
| 1 | g4625.t1 | Pfam | PF00106 | short chain dehydrogenase | 67 | 259 | 5.8E-44 |
| 14 | g4625.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 17 | g4625.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 33 | - |
| 16 | g4625.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 34 | 167 | - |
| 18 | g4625.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 168 | 188 | - |
| 15 | g4625.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 189 | 330 | - |
| 22 | g4625.t1 | ProSitePatterns | PS00061 | Short-chain dehydrogenases/reductases family signature. | 204 | 232 | - |
| 12 | g4625.t1 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 65 | 320 | 1.94E-49 |
| 21 | g4625.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
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