General information for g443.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Polyprenol reductase.
Parent gene
- The parent gene g443 is located on chr_3: 3373124..3374093 (- 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_3 | g443 | g443.t1 | TTS | g443.t1 | 3373090 | 3373090 |
| chr_3 | g443 | g443.t1 | isoform | g443.t1 | 3373124 | 3374093 |
| chr_3 | g443 | g443.t1 | exon | g443.t1.exon1 | 3373124 | 3373710 |
| chr_3 | g443 | g443.t1 | cds | g443.t1.CDS1 | 3373124 | 3373710 |
| chr_3 | g443 | g443.t1 | exon | g443.t1.exon2 | 3373763 | 3374093 |
| chr_3 | g443 | g443.t1 | cds | g443.t1.CDS2 | 3373763 | 3374093 |
| chr_3 | g443 | g443.t1 | TSS | g443.t1 | 3374191 | 3374191 |
Sequences
>g443.t1 Gene=g443 Length=918
ATGAATTTGATAAATTTATTATTTATTCAATTAACAGTAGTGATTGTTATTCTCGGTACA
CTCATGAATTTGATTGAAAAGCATTTGCCAACAAATGTAAAACAAATGTTCCGTTATGGC
AAGCATGCATATAATGGTGAGAAAAGTGATAAGTTAGTGTCAAAAATTGAAATTCCAAAA
ACCTGGTTTAAACATTTTTACGTGTTTGCTCTGTTTTGGAGTTGGAGTGCAGTGATTTTG
TCAATTGCAATTTATTTCTTTGACCAAAAACCGCATGAGTATTTCATTAAGTATCTTGAT
TTATCGTGTGGTCAAGATAGAAAAGCTGAAACATCACCTTTGTTGACTTTGAGCACATTG
ATATTGATGACACTACAATGCACGCGAAGATTTGTTGAGACCAACTTTCTCCAAATATTT
TCAAAGAAGAGCAAAATAAACTTGACCCATTATATGTGCGGCTATTTGCATTATTATGGT
GTTATAGTTCTCATCATCGCTAAAAGTGAAGGATTTACACGTGATCAAAATATACCATTG
ATAACATTCAAATCATCTGAAATGTTTCGTGTTTTCATTGCCACAATGTTGTTCATCTAT
CTATGGTACAAACAATACGAGTCGAATATGATTTTTATCAATCTTCGTAAAAATAAGTCT
GGAAAAGTAACAACAGAGATACATTTGATGCCAAAAGGTGGATGGTTTGAATATGTTTCT
TCACCTCATATGACAAGTGAAGTTGGCATGTATCTTGTACTTTATATTCTTCTATTTCAA
AATACATCTTACATTTATTGCCTTTTATGGGTCGTTAGCAATCAATTCTCAAATGCTTTG
CTTACACATCAATGGTACAAAGACACATTCTCTGATTATCCCAAAAATCGCAAAGCATTT
ATACCATTTTTAATTTAG
>g443.t1 Gene=g443 Length=305
MNLINLLFIQLTVVIVILGTLMNLIEKHLPTNVKQMFRYGKHAYNGEKSDKLVSKIEIPK
TWFKHFYVFALFWSWSAVILSIAIYFFDQKPHEYFIKYLDLSCGQDRKAETSPLLTLSTL
ILMTLQCTRRFVETNFLQIFSKKSKINLTHYMCGYLHYYGVIVLIIAKSEGFTRDQNIPL
ITFKSSEMFRVFIATMLFIYLWYKQYESNMIFINLRKNKSGKVTTEIHLMPKGGWFEYVS
SPHMTSEVGMYLVLYILLFQNTSYIYCLLWVVSNQFSNALLTHQWYKDTFSDYPKNRKAF
IPFLI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g443.t1 | PANTHER | PTHR14624 | DFG10 PROTEIN | 2 | 304 | 5.9E-58 |
| 3 | g443.t1 | PANTHER | PTHR14624:SF0 | POLYPRENOL REDUCTASE | 2 | 304 | 5.9E-58 |
| 1 | g443.t1 | Pfam | PF02544 | 3-oxo-5-alpha-steroid 4-dehydrogenase | 188 | 304 | 3.8E-21 |
| 13 | g443.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 5 | - |
| 16 | g443.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 25 | - |
| 10 | g443.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 26 | 65 | - |
| 20 | g443.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 66 | 87 | - |
| 14 | g443.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 88 | 147 | - |
| 19 | g443.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 148 | 167 | - |
| 11 | g443.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 168 | 187 | - |
| 18 | g443.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 188 | 203 | - |
| 15 | g443.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 204 | 247 | - |
| 17 | g443.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 248 | 272 | - |
| 12 | g443.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 273 | 305 | - |
| 9 | g443.t1 | ProSiteProfiles | PS50244 | Steroid 5-alpha reductase C-terminal domain profile. | 194 | 280 | 14.418 |
| 4 | g443.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 4 | 26 | - |
| 5 | g443.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 65 | 87 | - |
| 6 | g443.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 148 | 167 | - |
| 7 | g443.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 180 | 202 | - |
| 8 | g443.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 250 | 272 | - |
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:0016627 | oxidoreductase activity, acting on the CH-CH group of donors | MF |
| GO:0003865 | 3-oxo-5-alpha-steroid 4-dehydrogenase activity | MF |
| GO:0006488 | dolichol-linked oligosaccharide biosynthetic process | BP |
| GO:0006629 | lipid metabolic process | BP |
KEGG
Orthology
- This transcript has been annotated with K12345 (3-oxo-5-alpha-steroid 4-dehydrogenase 3 / polyprenol 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.
