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.t20 isoform g10402.t20 9567301 9568734
chr_1 g10402 g10402.t20 exon g10402.t20.exon1 9567301 9568600
chr_1 g10402 g10402.t20 cds g10402.t20.CDS1 9567301 9568600
chr_1 g10402 g10402.t20 exon g10402.t20.exon2 9568664 9568734
chr_1 g10402 g10402.t20 cds g10402.t20.CDS2 9568664 9568734
chr_1 g10402 g10402.t20 TSS g10402.t20 NA NA
chr_1 g10402 g10402.t20 TTS g10402.t20 NA NA

Sequences

>g10402.t20 Gene=g10402 Length=1371
ATGGCAGAAGAAAGATTAACATTTTTGAAAAAGATGGATATAAGATGCAAATCTAGTAAT
ATAATATTTAGAAATAACTCGTATGGACTTTGGTTGAGTTCGCTTTTATTTTTATCTTAT
CTACAGACAATTTTGCGAAATCCGTATACAATTCAACTGGAATATGAACTTATTACCGTA
CTAATTGCTGGAATGATGCTTCAATCAATTGAAATATTTATTAGTTTCGTTTATATTGAT
CAACTAAACATATTAAAATTTCTAATGAAAATTTTTCCGACAATCGTCATTACAACTATT
TTCAACTTGATACTCAACCAAGATATGATATTCAGCTTATTTACAAGCTCAACCGTTATG
TTGATCTATTATTTATTGCTAATGTATACACTGAAATCAATGCCACGCTGTTTTACGTTT
GGAGAGGCAACTATAGTGGCTCAAGGACTTGTTATATTTCTTTACAACTGCTTCCTTCAA
CTGCCTTATATTAATCAAGTGACAACAATATCAAATCAACTCAACATAATTTTACAAATG
GGACTTTTAGATGTGCTCTTTCTTATAATTACAACTCATTTCATTCCTGTATTTCGGAAA
TGGTACCTATTCTATCCACTCTTATTATTTTTAATAATAACACTCTGCTTGACGTTAGTG
AATGGTGAGAGTGCAGCTGTCATTTTATGGAATTTTGTATTTAGCGATATCGAAAGAAGT
GCCATAGTTGTGGGATATACAATTTTTCTTATATTAGCTGCGTATACAATATGGATTCAA
ATCAAAAAGAATCAAAGAGGTTCAACAGCAACACGAAAAATATTTCATGTGCTCATCGTT
CTTGTTTACTTGCCAGGATTAATGCGTCAATGCTATTTTCTTTATGTAGCATCAGTTGTA
ATCCTAGCAATTTTAATAATAATTGAATTAGCTCGAGTGATTAAATTATATCCTATCGCT
GAAATATTAGATGCAGCTGTTGTTGCCTTCATTGATGAACAAGATTCTGGAAATATTGCA
TTGACACCGATTTATCTCCTCATTGGATGCTCTATACCTTTATGGATTCATAATTCACCT
TGTGACATGACTAATTCAAGTGGTTCTGAACTTCTACCATTGCTTGCGGGAATTTTATCG
ATTGGAATTGGCGATACATTTGCTAGTGCAATAGGATCGAAAATCGGAAGACATAAATGG
AGTAAAAATTCACAAAAATCTGTTGAAGGAACACTTGCAAGTATTTTTGCTCAAGGAATA
TTTATTTATGGTTTATGTACACTGCAGTTTTTAAATTTAAGTACAAGACTGATGATCATA
TGTGGAGTAGCTGTGATTTCAAATGCTCTCATTGAGGCATTTACTCTTCAA

>g10402.t20 Gene=g10402 Length=457
MAEERLTFLKKMDIRCKSSNIIFRNNSYGLWLSSLLFLSYLQTILRNPYTIQLEYELITV
LIAGMMLQSIEIFISFVYIDQLNILKFLMKIFPTIVITTIFNLILNQDMIFSLFTSSTVM
LIYYLLLMYTLKSMPRCFTFGEATIVAQGLVIFLYNCFLQLPYINQVTTISNQLNIILQM
GLLDVLFLIITTHFIPVFRKWYLFYPLLLFLIITLCLTLVNGESAAVILWNFVFSDIERS
AIVVGYTIFLILAAYTIWIQIKKNQRGSTATRKIFHVLIVLVYLPGLMRQCYFLYVASVV
ILAILIIIELARVIKLYPIAEILDAAVVAFIDEQDSGNIALTPIYLLIGCSIPLWIHNSP
CDMTNSSGSELLPLLAGILSIGIGDTFASAIGSKIGRHKWSKNSQKSVEGTLASIFAQGI
FIYGLCTLQFLNLSTRLMIICGVAVISNALIEAFTLQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g10402.t20 PANTHER PTHR13205 TRANSMEMBRANE PROTEIN 15-RELATED 9 456 4.0E-63
2 g10402.t20 PANTHER PTHR13205:SF15 DOLICHOL KINASE 9 456 4.0E-63
16 g10402.t20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 20 -
43 g10402.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 21 45 -
26 g10402.t20 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 46 56 -
31 g10402.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 57 80 -
21 g10402.t20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 81 86 -
33 g10402.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 87 105 -
27 g10402.t20 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 106 110 -
40 g10402.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 111 131 -
20 g10402.t20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 132 142 -
38 g10402.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 143 164 -
28 g10402.t20 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 165 175 -
42 g10402.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 176 195 -
23 g10402.t20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 196 201 -
37 g10402.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 202 220 -
30 g10402.t20 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 221 239 -
36 g10402.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 240 258 -
18 g10402.t20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 259 269 -
32 g10402.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 270 286 -
29 g10402.t20 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 287 291 -
34 g10402.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 292 311 -
17 g10402.t20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 312 338 -
44 g10402.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 339 356 -
24 g10402.t20 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 357 370 -
41 g10402.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 371 391 -
19 g10402.t20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 392 411 -
39 g10402.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 412 431 -
25 g10402.t20 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 432 436 -
35 g10402.t20 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 437 456 -
22 g10402.t20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 457 457 -
8 g10402.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 20 42 -
7 g10402.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 57 79 -
11 g10402.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 86 105 -
12 g10402.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 109 131 -
14 g10402.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 144 166 -
13 g10402.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 176 198 -
4 g10402.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 203 222 -
15 g10402.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 237 259 -
6 g10402.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 292 314 -
9 g10402.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 339 358 -
5 g10402.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 371 393 -
10 g10402.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 408 430 -
3 g10402.t20 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 437 456 -

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

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.

Raw TPM values