Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Dolichol kinase.

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_1 g10402 g10402.t21 isoform g10402.t21 9567301 9568734
chr_1 g10402 g10402.t21 exon g10402.t21.exon1 9567301 9568013
chr_1 g10402 g10402.t21 cds g10402.t21.CDS1 9567301 9567810
chr_1 g10402 g10402.t21 exon g10402.t21.exon2 9568070 9568600
chr_1 g10402 g10402.t21 exon g10402.t21.exon3 9568664 9568734
chr_1 g10402 g10402.t21 TSS g10402.t21 NA NA
chr_1 g10402 g10402.t21 TTS g10402.t21 NA NA

Sequences

>g10402.t21 Gene=g10402 Length=1315
ATGGCAGAAGAAAGATTAACATTTTTGAAAAAGATGGATATAAGATGCAAATCTAGTAAT
ATAATATTTAGAAATAACTCGTATGGACTTTGGTTGAGTTCGCTTTTATTTTTATCTTAT
CTACAGACAATTTTGCGAAATCCGTATACAATTCAACTGGAATATGAACTTATTACCGTA
CTAATTGCTGGAATGATGCTTCAATCAATTGAAATATTTATTAGTTTCGTTTATATTGAT
CAACTAAACATATTAAAATTTCTAATGAAAATTTTTCCGACAATCGTCATTACAACTATT
TTCAACTTGATACTCAACCAAGATATGATATTCAGCTTATTTACAAGCTCAACCGTTATG
TTGATCTATTATTTATTGCTAATGTATACACTGAAATCAATGCCACGCTGTTTTACGTTT
GGAGAGGCAACTATAGTGGCTCAAGGACTTGTTATATTTCTTTACAACTGCTTCCTTCAA
CTGCCTTATATTAATCAAGTGACAACAATATCAAATCAACTCAACATAATTTTACAAATG
GGACTTTTAGATGTGCTCTTTCTTATAATTACAACTCATTTCATTCCTGTATTTCGGAAA
TGTGAATGGTGAGAGTGCAGCTGTCATTTTATGGAATTTTGTATTTAGCGATATCGAAAG
AAGTGCCATAGTTGTGGGATATACAATTTTTCTTATATTAGCTGCGTATACAATATGGAT
TCAAATCAAAAAGAATCAAAGAGGTTCAACAGCAACACGAAAAATATTTCATGTGCTCAT
CGTTCTTGTTTACTTGCCAGGATTAATGCGTCAATGCTATTTTCTTTATGTAGCATCAGT
TGTAATCCTAGCAATTTTAATAATAATTGAATTAGCTCGAGTGATTAAATTATATCCTAT
CGCTGAAATATTAGATGCAGCTGTTGTTGCCTTCATTGATGAACAAGATTCTGGAAATAT
TGCATTGACACCGATTTATCTCCTCATTGGATGCTCTATACCTTTATGGATTCATAATTC
ACCTTGTGACATGACTAATTCAAGTGGTTCTGAACTTCTACCATTGCTTGCGGGAATTTT
ATCGATTGGAATTGGCGATACATTTGCTAGTGCAATAGGATCGAAAATCGGAAGACATAA
ATGGAGTAAAAATTCACAAAAATCTGTTGAAGGAACACTTGCAAGTATTTTTGCTCAAGG
AATATTTATTTATGGTTTATGTACACTGCAGTTTTTAAATTTAAGTACAAGACTGATGAT
CATATGTGGAGTAGCTGTGATTTCAAATGCTCTCATTGAGGCATTTACTCTTCAA

>g10402.t21 Gene=g10402 Length=170
MRQCYFLYVASVVILAILIIIELARVIKLYPIAEILDAAVVAFIDEQDSGNIALTPIYLL
IGCSIPLWIHNSPCDMTNSSGSELLPLLAGILSIGIGDTFASAIGSKIGRHKWSKNSQKS
VEGTLASIFAQGIFIYGLCTLQFLNLSTRLMIICGVAVISNALIEAFTLQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g10402.t21 PANTHER PTHR13205 TRANSMEMBRANE PROTEIN 15-RELATED 3 169 3.8E-46
2 g10402.t21 PANTHER PTHR13205:SF15 DOLICHOL KINASE 3 169 3.8E-46
12 g10402.t21 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
18 g10402.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 24 -
8 g10402.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 25 51 -
15 g10402.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 52 69 -
11 g10402.t21 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 70 83 -
17 g10402.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 84 104 -
10 g10402.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 105 124 -
16 g10402.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 125 144 -
13 g10402.t21 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 145 149 -
14 g10402.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 150 169 -
9 g10402.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 170 170 -
7 g10402.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 27 -
6 g10402.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 52 71 -
4 g10402.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 84 106 -
5 g10402.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 121 143 -
3 g10402.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 150 169 -

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:0004168 dolichol kinase activity MF
GO:0043048 dolichyl monophosphate 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.

Raw TPM values