Gene loci information

Transcript annotation

  • This transcript has been annotated as Choline/ethanolaminephosphotransferase 1.

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_2 g8116 g8116.t1 TSS g8116.t1 28648802 28648802
chr_2 g8116 g8116.t1 isoform g8116.t1 28648944 28650551
chr_2 g8116 g8116.t1 exon g8116.t1.exon1 28648944 28648999
chr_2 g8116 g8116.t1 cds g8116.t1.CDS1 28648944 28648999
chr_2 g8116 g8116.t1 exon g8116.t1.exon2 28649254 28649504
chr_2 g8116 g8116.t1 cds g8116.t1.CDS2 28649254 28649504
chr_2 g8116 g8116.t1 exon g8116.t1.exon3 28649569 28649682
chr_2 g8116 g8116.t1 cds g8116.t1.CDS3 28649569 28649682
chr_2 g8116 g8116.t1 exon g8116.t1.exon4 28649735 28649819
chr_2 g8116 g8116.t1 cds g8116.t1.CDS4 28649735 28649819
chr_2 g8116 g8116.t1 exon g8116.t1.exon5 28649897 28650551
chr_2 g8116 g8116.t1 cds g8116.t1.CDS5 28649897 28650551
chr_2 g8116 g8116.t1 TTS g8116.t1 28651007 28651007

Sequences

>g8116.t1 Gene=g8116 Length=1161
ATGATAGTTTGGTACAAGAAAGATATTTTATCAAAAACTCAACTTAAAAAGCTGAGTGAG
CACAAATATAATTGCGAATCAAATAGTGTTTGCGATAAACTTCTACAACCATGGTGGTGT
TATCTTGTTTCAAAAACACCCCTGTTTGTTGCTCCTAATCTTCTAACGATTATTGGACTT
CTTGTTAACATCATCACCTCATTGTTATTGCTTTACCATGCACCTGACGCTAAAGCTGAA
GCACCTCGATGGTGTTATTTATCATGTGCTGTAGGACTTTTTGTTTACCAAAGTCTTGAT
GCTATTGATGGAAAACAAGCTCGTCGCACAAATACATCATCACCACTTGGAGAGTTGTTT
GATCATGGATGTGATTCAATTTCTACAGTTTTTGTAAGCATTGCAGCATGCTGTGCTGGA
GGTCTTGGTCATCATCCGATTGCAATGTTGCTTAATTGTGCAACAGCTATAATTTTATTT
TACGTAGCTCATTGGCAGACATATATAACGGGAGTTTTACGTTTTGGTAAATTTGATGTA
ACAGAAGCACAACTATGTATAATGGCAATACATTTAGTATCATTTTTCTTCGGACCTCAA
GCGTGGCACGTACAAATATTTGGTGGAATTCAATTATGGTTCCTGATGGCTTCTTTTTCA
TTAATTACCGCCTTATTGGTGCTAATAAATTTCGCACAAACGATTAGAAAAGGAGGGATT
GGAAAAAACGGATCGACAGTGGCCGGCACAAGCATCATTGCCCCCATTCTTCCATTTCTT
CTTGTAGTAATACCAGCTTTTATAATTTCTGAAAAATCACGCAGCCAAGTATATCTAAAT
CATCCAGTACTATATTTATTAACATTTGGTGTGCTTGCTGCAAAAGTTTCATGCCGGTTA
GTAGTCGCACATATGAGTAAATCTGAAATGAATTTACTTGACTCTGGACTAGTTGGTCCA
CTCATACTCTTCCTCAATCAATATTTCAATGAGTTCTTTAACGAATATTATATCTTATGG
TTAGCATTTTTGTGGTGCACATACGATTTAATTGGCTATTGTAGTACAGTTTGCCTCGAA
ATGGTTTCCTATCTCAACATTCATCTCTTCAAAATTCCTTACCCGCCAAAAAGTAACAAA
GTTGCTAATTCTAGAAAATAG

>g8116.t1 Gene=g8116 Length=386
MIVWYKKDILSKTQLKKLSEHKYNCESNSVCDKLLQPWWCYLVSKTPLFVAPNLLTIIGL
LVNIITSLLLLYHAPDAKAEAPRWCYLSCAVGLFVYQSLDAIDGKQARRTNTSSPLGELF
DHGCDSISTVFVSIAACCAGGLGHHPIAMLLNCATAIILFYVAHWQTYITGVLRFGKFDV
TEAQLCIMAIHLVSFFFGPQAWHVQIFGGIQLWFLMASFSLITALLVLINFAQTIRKGGI
GKNGSTVAGTSIIAPILPFLLVVIPAFIISEKSRSQVYLNHPVLYLLTFGVLAAKVSCRL
VVAHMSKSEMNLLDSGLVGPLILFLNQYFNEFFNEYYILWLAFLWCTYDLIGYCSTVCLE
MVSYLNIHLFKIPYPPKSNKVANSRK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g8116.t1 Gene3D G3DSA:1.20.120.1760 - 33 231 2.0E-15
2 g8116.t1 PANTHER PTHR10414:SF27 CHOLINE/ETHANOLAMINEPHOSPHOTRANSFERASE 1 9 373 3.1E-127
3 g8116.t1 PANTHER PTHR10414 ETHANOLAMINEPHOSPHOTRANSFERASE 9 373 3.1E-127
32 g8116.t1 PIRSF PIRSF015665 CHOPT 6 382 2.5E-116
1 g8116.t1 Pfam PF01066 CDP-alcohol phosphatidyltransferase 50 125 2.2E-17
20 g8116.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 47 -
25 g8116.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 48 72 -
16 g8116.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 73 83 -
29 g8116.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 84 102 -
19 g8116.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 103 148 -
31 g8116.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 149 173 -
15 g8116.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 174 184 -
30 g8116.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 185 204 -
18 g8116.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 205 209 -
23 g8116.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 210 231 -
14 g8116.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 232 251 -
26 g8116.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 252 270 -
21 g8116.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 271 281 -
27 g8116.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 282 302 -
17 g8116.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 303 310 -
24 g8116.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 311 330 -
22 g8116.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 331 335 -
28 g8116.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 336 362 -
13 g8116.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 363 386 -
11 g8116.t1 ProSitePatterns PS00379 CDP-alcohol phosphatidyltransferases signature. 103 125 -
4 g8116.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 49 71 -
9 g8116.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 143 165 -
7 g8116.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 180 197 -
10 g8116.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 210 232 -
8 g8116.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 247 269 -
5 g8116.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 281 303 -
6 g8116.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 337 359 -

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:0016020 membrane CC
GO:0008654 phospholipid biosynthetic process BP
GO:0016780 phosphotransferase activity, for other substituted phosphate groups MF

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