Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Phosphatidate cytidylyltransferase, photoreceptor-specific.

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 g3018 g3018.t14 TSS g3018.t14 22145982 22145982
chr_3 g3018 g3018.t14 isoform g3018.t14 22146785 22147208
chr_3 g3018 g3018.t14 exon g3018.t14.exon1 22146785 22147129
chr_3 g3018 g3018.t14 cds g3018.t14.CDS1 22146796 22147129
chr_3 g3018 g3018.t14 exon g3018.t14.exon2 22147187 22147208
chr_3 g3018 g3018.t14 cds g3018.t14.CDS2 22147187 22147206
chr_3 g3018 g3018.t14 TTS g3018.t14 22148011 22148011

Sequences

>g3018.t14 Gene=g3018 Length=367
TTCAAGAAATAATGCAGATTGGATTTGTTACCTATAGAGTTGATGAAATTCCATGGTTTC
GGCATTTAACTTGGTATTTATTGACAGTCTCCAACTATTATTATTATGGCGAATATTTCT
TCGATTATTTTGGACCACCACTCAATCGTATAGAATCACTACAATTCTTAATTAAATCAC
ATCGCTTCATTTCCTATTGTCTCTATCTCTTTGCAATAATAATGTTTGTATTGTCACTCG
TTAAGAAATACAATACTAGACAATTTCATCTGTTTGCATGGGCGCATGTCGCTTTATTGA
TCACTGTCGTTCCAAGCTATCTTATCATAAGAAACACGTTCGATGGATTGATTTGGTTCA
TCATACC

>g3018.t14 Gene=g3018 Length=118
MQIGFVTYRVDEIPWFRHLTWYLLTVSNYYYYGEYFFDYFGPPLNRIESLQFLIKSHRFI
SYCLYLFAIIMFVLSLVKKYNTRQFHLFAWAHVALLITVVPSYLIIRNTFDGLIWFII

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3018.t14 PANTHER PTHR13773:SF16 PHOSPHATIDATE CYTIDYLYLTRANSFERASE 1 2 118 1.3E-35
3 g3018.t14 PANTHER PTHR13773 PHOSPHATIDATE CYTIDYLYLTRANSFERASE 2 118 1.3E-35
1 g3018.t14 Pfam PF01148 Cytidylyltransferase family 7 118 2.6E-6
9 g3018.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 58 -
11 g3018.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 59 77 -
7 g3018.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 78 88 -
10 g3018.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 89 106 -
8 g3018.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 107 118 -
6 g3018.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 32 -
5 g3018.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 58 77 -
4 g3018.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 84 106 -

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:0004605 phosphatidate cytidylyltransferase activity 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. There were no conditions that were differentially expressed