Gene loci information

Transcript annotation

  • This transcript has been annotated as CDP-diacylglycerol–inositol 3-phosphatidyltransferase.

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 g2590 g2590.t7 TSS g2590.t7 18929852 18929852
chr_3 g2590 g2590.t7 isoform g2590.t7 18929960 18931581
chr_3 g2590 g2590.t7 exon g2590.t7.exon1 18929960 18930220
chr_3 g2590 g2590.t7 cds g2590.t7.CDS1 18930127 18930220
chr_3 g2590 g2590.t7 exon g2590.t7.exon2 18930327 18930644
chr_3 g2590 g2590.t7 cds g2590.t7.CDS2 18930327 18930644
chr_3 g2590 g2590.t7 exon g2590.t7.exon3 18930716 18931581
chr_3 g2590 g2590.t7 cds g2590.t7.CDS3 18930716 18930888
chr_3 g2590 g2590.t7 TTS g2590.t7 18931567 18931567

Sequences

>g2590.t7 Gene=g2590 Length=1445
ATGTCTCTTATTGAAACAAATAATGTTTATCTTTTCATTCCAAATATTATTGGTAAATTG
CTCTTAATGATGTAAATTACGCATTATATTGCATTTAATTTGTATTCTTTTTCACAAATA
TTACAGGATATACCAGAATTGTTTTGGCTATAATATCTTTTTATTTTATGCCAACTAATC
ATATTATTTCGAGTTATTGCTACATTGCAAGCGTTCTCGCCGATGCTTTAGATGGACACG
CAGCTAGAAAGTTTAATCAATCTACAAAATTTGGAGCAATGTTGGATCAATTGACTGATC
GTTGCGGAACTATGGGTCTATTAGTTACTTTGAGTTACTTCTATCCGAAATACATGTTTT
GGTTTCAACTGTCAATGGCCATTGATGTTTCTTGTCATTGGTTCTATCTTCATACTACAA
TTTTGCAAGGAAAAACAAGTCATAAATTTATTGACATGAATGAGAATCCAATAATGCATA
TTTATTACACAAATCGTACTGTATTAGGCTTCATGTGTCTCTTTAACGAACTTTTCTATG
CGGCTCTATATTTGCTCTATTTTACACCTGGTCCTCTATTCTTGGGTGTTTCATCGTTCA
AATTACTTGCCATTATTTCTGCACCAGTTGCTATTGTCAAGACATTAATCTCTGTCATAC
ATGGAATTGTTGCAAGTGTCAACATTACATCAATCGATGCAAAAGAACGAGAAGATGCGA
AAAAGAAAGATCTAGGCAAGAAAAGTGAATAAATATGCTTCATTTTATACAAACTAATAA
TTAATAATATTTATGACGATCCCAGTTTACTGACTCTTTGTCAATATATTTTTTAACAAG
TAGGTACTTTAAAGAAAAAGTACATGAAATTCCATATTTCATAATCATATATTTGAAACT
TACCAAAAAAATCACTATTTGTATGAATTTGATATTTTCATTATTAATTGTACCTGATGC
TCTTCTCTTCTGTCCTAACTCAACAACAAAAACAATAGAAATATACTTTAACCCTTTCTA
ACAAGTCATTTACAGATGAAAATCTCACATTCTGAACAAAAAAAATCCAATTAAAAGAAA
GAATTATAAAGAACTTTTCTTGAGATTTGCAATTTATTGTGTTAATAATTATTAAATTAT
AATGTAATTTTATGCGTGTTTAATGAAGAAGATAGAGAATATAGAGATTTATGTTTAGCC
AAAGGAAACTACTATTTAAAAAAATAACTTAAATTGAAAATCCAGGATAATTAAATTATT
ACAATTACTACTTAATGTTATAGCAAAAAAAGAAAATTTCTTCATGTGACAAAAATTATT
TATTTTGATGTAAGGTGATGGGAATAAAAAACACTAAAAGCATGTGTAATGTAATTCACG
TGGGCTAAAGAGTCGAGTTATAATAAAGCAAATATAATTAAGAATCAATATAGAAAATGT
CGCTT

>g2590.t7 Gene=g2590 Length=194
MPTNHIISSYCYIASVLADALDGHAARKFNQSTKFGAMLDQLTDRCGTMGLLVTLSYFYP
KYMFWFQLSMAIDVSCHWFYLHTTILQGKTSHKFIDMNENPIMHIYYTNRTVLGFMCLFN
ELFYAALYLLYFTPGPLFLGVSSFKLLAIISAPVAIVKTLISVIHGIVASVNITSIDAKE
REDAKKKDLGKKSE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g2590.t7 Gene3D G3DSA:1.20.120.1760 - 2 176 5.7E-12
2 g2590.t7 PANTHER PTHR15362 PHOSPHATIDYLINOSITOL SYNTHASE 1 182 6.0E-52
3 g2590.t7 PANTHER PTHR15362:SF4 CDP-DIACYLGLYCEROL–INOSITOL 3-PHOSPHATIDYLTRANSFERASE 1 182 6.0E-52
15 g2590.t7 PIRSF PIRSF000848 CDP_diag_ino_3_P 1 185 7.3E-73
1 g2590.t7 Pfam PF01066 CDP-alcohol phosphatidyltransferase 10 44 1.1E-8
10 g2590.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 61 -
14 g2590.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 62 81 -
8 g2590.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 82 111 -
13 g2590.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 112 131 -
11 g2590.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 132 136 -
12 g2590.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 137 157 -
9 g2590.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 158 194 -
6 g2590.t7 ProSitePatterns PS00379 CDP-alcohol phosphatidyltransferases signature. 22 44 -
4 g2590.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 112 134 -
5 g2590.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 149 171 -

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