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.t3 isoform g2590.t3 18929474 18930888
chr_3 g2590 g2590.t3 exon g2590.t3.exon1 18929474 18929619
chr_3 g2590 g2590.t3 exon g2590.t3.exon2 18929864 18930011
chr_3 g2590 g2590.t3 cds g2590.t3.CDS1 18929960 18930011
chr_3 g2590 g2590.t3 exon g2590.t3.exon3 18930086 18930220
chr_3 g2590 g2590.t3 cds g2590.t3.CDS2 18930086 18930220
chr_3 g2590 g2590.t3 exon g2590.t3.exon4 18930327 18930644
chr_3 g2590 g2590.t3 cds g2590.t3.CDS3 18930327 18930644
chr_3 g2590 g2590.t3 exon g2590.t3.exon5 18930716 18930888
chr_3 g2590 g2590.t3 cds g2590.t3.CDS4 18930716 18930888
chr_3 g2590 g2590.t3 TTS g2590.t3 18931567 18931567
chr_3 g2590 g2590.t3 TSS g2590.t3 NA NA

Sequences

>g2590.t3 Gene=g2590 Length=920
GGCGGACACTTTCGGTATCATTTTTTAAGTGTTCGCCTGTACGGATTTTTTTAATTTTCG
CCTGTTTGTCTGACAGGCGAACACTTAAAAAATCATAACTTCGCTAAAACTCAACCAAAA
AATTTCAAATGACGCTTGTTTTAAAGTAGAGGCGATAAGAGCAAAATAAATTGGTGTTTG
GTGACTTTTGTAAAAAAAAAAATAATTTAAGTGAAAAAAGTATTATTTGAAGGCTGAAAA
CAATGTCTCTTATTGAAACAAATAATGTTTATCTTTTCATTCCAAATATTATTGGATATA
CCAGAATTGTTTTGGCTATAATATCTTTTTATTTTATGCCAACTAATCATATTATTTCGA
GTTATTGCTACATTGCAAGCGTTCTCGCCGATGCTTTAGATGGACACGCAGCTAGAAAGT
TTAATCAATCTACAAAATTTGGAGCAATGTTGGATCAATTGACTGATCGTTGCGGAACTA
TGGGTCTATTAGTTACTTTGAGTTACTTCTATCCGAAATACATGTTTTGGTTTCAACTGT
CAATGGCCATTGATGTTTCTTGTCATTGGTTCTATCTTCATACTACAATTTTGCAAGGAA
AAACAAGTCATAAATTTATTGACATGAATGAGAATCCAATAATGCATATTTATTACACAA
ATCGTACTGTATTAGGCTTCATGTGTCTCTTTAACGAACTTTTCTATGCGGCTCTATATT
TGCTCTATTTTACACCTGGTCCTCTATTCTTGGGTGTTTCATCGTTCAAATTACTTGCCA
TTATTTCTGCACCAGTTGCTATTGTCAAGACATTAATCTCTGTCATACATGGAATTGTTG
CAAGTGTCAACATTACATCAATCGATGCAAAAGAACGAGAAGATGCGAAAAAGAAAGATC
TAGGCAAGAAAAGTGAATAA

>g2590.t3 Gene=g2590 Length=225
MSLIETNNVYLFIPNIIGYTRIVLAIISFYFMPTNHIISSYCYIASVLADALDGHAARKF
NQSTKFGAMLDQLTDRCGTMGLLVTLSYFYPKYMFWFQLSMAIDVSCHWFYLHTTILQGK
TSHKFIDMNENPIMHIYYTNRTVLGFMCLFNELFYAALYLLYFTPGPLFLGVSSFKLLAI
ISAPVAIVKTLISVIHGIVASVNITSIDAKEREDAKKKDLGKKSE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g2590.t3 Gene3D G3DSA:1.20.120.1760 - 9 189 2.7E-14
2 g2590.t3 PANTHER PTHR15362 PHOSPHATIDYLINOSITOL SYNTHASE 7 213 1.4E-66
3 g2590.t3 PANTHER PTHR15362:SF4 CDP-DIACYLGLYCEROL–INOSITOL 3-PHOSPHATIDYLTRANSFERASE 7 213 1.4E-66
19 g2590.t3 PIRSF PIRSF000848 CDP_diag_ino_3_P 1 216 9.1E-88
1 g2590.t3 Pfam PF01066 CDP-alcohol phosphatidyltransferase 13 75 1.2E-13
11 g2590.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 8 -
18 g2590.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 9 31 -
13 g2590.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 32 92 -
17 g2590.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 93 112 -
12 g2590.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 113 142 -
15 g2590.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 143 162 -
14 g2590.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 163 167 -
16 g2590.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 168 188 -
10 g2590.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 189 225 -
8 g2590.t3 ProSitePatterns PS00379 CDP-alcohol phosphatidyltransferases signature. 53 75 -
7 g2590.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 9 31 -
6 g2590.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 93 112 -
5 g2590.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 143 165 -
4 g2590.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 180 202 -

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