Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Polyprenol reductase.

Parent gene

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.t9 TTS g443.t9 3373090 3373090
chr_3 g443 g443.t9 isoform g443.t9 3373124 3374093
chr_3 g443 g443.t9 exon g443.t9.exon1 3373124 3373365
chr_3 g443 g443.t9 cds g443.t9.CDS1 3373365 3373365
chr_3 g443 g443.t9 exon g443.t9.exon2 3373437 3373710
chr_3 g443 g443.t9 cds g443.t9.CDS2 3373437 3373710
chr_3 g443 g443.t9 exon g443.t9.exon3 3373763 3374093
chr_3 g443 g443.t9 cds g443.t9.CDS3 3373763 3374093
chr_3 g443 g443.t9 TSS g443.t9 3374191 3374191

Sequences

>g443.t9 Gene=g443 Length=847
ATGAATTTGATAAATTTATTATTTATTCAATTAACAGTAGTGATTGTTATTCTCGGTACA
CTCATGAATTTGATTGAAAAGCATTTGCCAACAAATGTAAAACAAATGTTCCGTTATGGC
AAGCATGCATATAATGGTGAGAAAAGTGATAAGTTAGTGTCAAAAATTGAAATTCCAAAA
ACCTGGTTTAAACATTTTTACGTGTTTGCTCTGTTTTGGAGTTGGAGTGCAGTGATTTTG
TCAATTGCAATTTATTTCTTTGACCAAAAACCGCATGAGTATTTCATTAAGTATCTTGAT
TTATCGTGTGGTCAAGATAGAAAAGCTGAAACATCACCTTTGTTGACTTTGAGCACATTG
ATATTGATGACACTACAATGCACGCGAAGATTTGTTGAGACCAACTTTCTCCAAATATTT
TCAAAGAAGAGCAAAATAAACTTGACCCATTATATGTGCGGCTATTTGCATTATTATGGT
GTTATAGTTCTCATCATCGCTAAAAGTGAAGGATTTACACGTGATCAAAATATACCATTG
ATAACATTCAAATCATCTGAAATGTTTCGTGTTTTCATTGCCACAATGTTGTTCATCTAT
CTATGAGATACATTTGATGCCAAAAGGTGGATGGTTTGAATATGTTTCTTCACCTCATAT
GACAAGTGAAGTTGGCATGTATCTTGTACTTTATATTCTTCTATTTCAAAATACATCTTA
CATTTATTGCCTTTTATGGGTCGTTAGCAATCAATTCTCAAATGCTTTGCTTACACATCA
ATGGTACAAAGACACATTCTCTGATTATCCCAAAAATCGCAAAGCATTTATACCATTTTT
AATTTAG

>g443.t9 Gene=g443 Length=201
MNLINLLFIQLTVVIVILGTLMNLIEKHLPTNVKQMFRYGKHAYNGEKSDKLVSKIEIPK
TWFKHFYVFALFWSWSAVILSIAIYFFDQKPHEYFIKYLDLSCGQDRKAETSPLLTLSTL
ILMTLQCTRRFVETNFLQIFSKKSKINLTHYMCGYLHYYGVIVLIIAKSEGFTRDQNIPL
ITFKSSEMFRVFIATMLFIYL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g443.t9 PANTHER PTHR14624 DFG10 PROTEIN 2 170 2.0E-22
2 g443.t9 PANTHER PTHR14624:SF0 POLYPRENOL REDUCTASE 2 170 2.0E-22
8 g443.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
12 g443.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 25 -
6 g443.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 26 65 -
13 g443.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 66 87 -
10 g443.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 88 147 -
11 g443.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 148 166 -
7 g443.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 167 177 -
14 g443.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 178 200 -
9 g443.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 201 201 -
3 g443.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 4 26 -
4 g443.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 65 87 -
5 g443.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 148 167 -

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:0003865 3-oxo-5-alpha-steroid 4-dehydrogenase activity MF
GO:0006488 dolichol-linked oligosaccharide biosynthetic process BP

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