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 g7188 g7188.t4 TTS g7188.t4 21995767 21995767
chr_2 g7188 g7188.t4 isoform g7188.t4 21996753 21998187
chr_2 g7188 g7188.t4 exon g7188.t4.exon1 21996753 21997949
chr_2 g7188 g7188.t4 cds g7188.t4.CDS1 21996753 21997712
chr_2 g7188 g7188.t4 exon g7188.t4.exon2 21998083 21998187
chr_2 g7188 g7188.t4 TSS g7188.t4 21998296 21998296

Sequences

>g7188.t4 Gene=g7188 Length=1302
ATGTTGTTTAGGGAACAGAAAATTTTAAATTCATCACAGCTTCGTAAATTATCGGAGCAT
AAATACTCAGTCACGTCGAGTAGTCTGATTGAGCCGTATTTGCAGCCGTATTGGAATTGG
CTTGTTCTAAAATTGCCATTGTGGATTGCACCAAATTTAATAACGATAATTGGACTTGCT
GTAAATATCGTGACTGCGCTGATTCTGCTGTATTATAATCCAGATGGCAAAGATACCAAT
TCACCGCCACGGTGGACATATCTCGTGTGTGCTCTCGGTTTATTTATTTATCAATCGCTC
GACGCCATAGGTGAGATACATATATATGGATGATGAAAGTTTATGAGACACTTGAGCTTT
CTCCTCATCAAAAATTCACTCATAAAACTATCTCTTTTTTTTCTCTCGTTAACATCACTC
GTCGTCGCTTTTGTTTCAAATGTGAAAATAATAGATGGAAAGCAGGCTCGACGTACAAAT
ACATCTTCACCATTAGGAGAGCTCTTCGATCATGGTTGCGACAGTATATCATTGGTGTTT
GTCACTCTATCGACATGTGCTGCCGTCCAATATGGCTCATTTCCACAAATCATGTTTGTC
GAAGTGTTTGTTGTCTTCGCACTATTCTACTGTTCACATTGGCAGGCGTACATTAGTGGG
ACCCTTCATTTTGGCAAGATTGATGTGACAGAGGCTCATTATAGTGTGATTTTCGTGCAC
ATCATGACATTCTTCTATGGACCGAAGATTTGGTCAACAAAAATTTTTGGTGTACTGGAG
CTATGGTATCTCATTATCGGCATGACAATTTTGACTGGATCTCTCGTCGTTTCGGATTTT
ATTACAACAATCCGACGCGGTGGTTCTGGAAAAAATGGGAGCACTGTCGCGGGTACAAGT
GTAATTTCACCAATTATCCCATTTCTACTGATACTAATACCGTCATATATAATCGCTGTG
AAGTCAAAATCTGGAATTTATGAATCATCTCCAATGCTTTATATGTTAACATTTGGAATA
TTATTTGCGAAAATTACGAATAAGCTCGTAATAGCGCATCTCTCAAAAAGTGTTATGGAC
TATTTTGATTCGGGTATGTGGGGACCAGTAGCATTATTTCTTAATCAATATTTTAACGAA
TTCTTTCCGGAGTATTATTTGCTGTGGTTGGTGCTTGGATGGGTTACGGTAGATTTAATT
TGGTACTGCTCTACAGTGTGCTTAGAAATGTGCGAATATATGAATATTAAATTGTTCACC
ATACCATATCCGACGAAAGTGGCAGTGAATGGAAAAAAATAA

>g7188.t4 Gene=g7188 Length=319
MRHLSFLLIKNSLIKLSLFFLSLTSLVVAFVSNVKIIDGKQARRTNTSSPLGELFDHGCD
SISLVFVTLSTCAAVQYGSFPQIMFVEVFVVFALFYCSHWQAYISGTLHFGKIDVTEAHY
SVIFVHIMTFFYGPKIWSTKIFGVLELWYLIIGMTILTGSLVVSDFITTIRRGGSGKNGS
TVAGTSVISPIIPFLLILIPSYIIAVKSKSGIYESSPMLYMLTFGILFAKITNKLVIAHL
SKSVMDYFDSGMWGPVALFLNQYFNEFFPEYYLLWLVLGWVTVDLIWYCSTVCLEMCEYM
NIKLFTIPYPTKVAVNGKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g7188.t4 Gene3D G3DSA:1.20.120.1760 - 3 179 1.2E-9
2 g7188.t4 PANTHER PTHR10414:SF32 CHOLINEPHOSPHOTRANSFERASE 1 24 310 4.3E-81
3 g7188.t4 PANTHER PTHR10414 ETHANOLAMINEPHOSPHOTRANSFERASE 24 310 4.3E-81
1 g7188.t4 Pfam PF01066 CDP-alcohol phosphatidyltransferase 20 60 2.7E-8
13 g7188.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
24 g7188.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 34 -
20 g7188.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 35 53 -
28 g7188.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 54 77 -
17 g7188.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 78 83 -
27 g7188.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 84 106 -
21 g7188.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 107 117 -
26 g7188.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 118 135 -
15 g7188.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 136 146 -
25 g7188.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 147 167 -
18 g7188.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 168 186 -
29 g7188.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 187 206 -
16 g7188.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 207 217 -
22 g7188.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 218 240 -
19 g7188.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 241 271 -
23 g7188.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 272 294 -
14 g7188.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 295 319 -
11 g7188.t4 ProSitePatterns PS00379 CDP-alcohol phosphatidyltransferases signature. 38 60 -
6 g7188.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 37 -
10 g7188.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 83 105 -
9 g7188.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 115 134 -
5 g7188.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 141 163 -
4 g7188.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 183 205 -
7 g7188.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 218 240 -
8 g7188.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 272 294 -

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

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