Gene loci information

Transcript annotation

  • This transcript has been annotated as CDP-diacylglycerol–glycerol-3-phosphate 3-phosphatidyltransferase, mitochondrial.

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 g3592 g3592.t5 TSS g3592.t5 26637303 26637303
chr_3 g3592 g3592.t5 isoform g3592.t5 26637373 26639082
chr_3 g3592 g3592.t5 exon g3592.t5.exon1 26637373 26637416
chr_3 g3592 g3592.t5 exon g3592.t5.exon2 26637484 26637743
chr_3 g3592 g3592.t5 exon g3592.t5.exon3 26637793 26638808
chr_3 g3592 g3592.t5 cds g3592.t5.CDS1 26637815 26638808
chr_3 g3592 g3592.t5 exon g3592.t5.exon4 26638874 26639082
chr_3 g3592 g3592.t5 cds g3592.t5.CDS2 26638874 26639082
chr_3 g3592 g3592.t5 TTS g3592.t5 26639147 26639147

Sequences

>g3592.t5 Gene=g3592 Length=1529
ATGATCAAAAATCAAGATGATAAGTGGAACGAAACGAGGATTTGTTTTCAAGTAATTTCT
AAATTGATCGCTATATTTTTAGCTGCATTTACAATGATTCGCAGAGTCTTCTCCACATTC
ATTGACTACCATTCTCCAATCACTCAGTCTGATTTCTTTCAACCATCAACATTTGGAATT
CATCGTATCAAAGAGGAACACTGGCCGATTGATAATTTCTCTTTTCTATTAAATTTCTCA
CCATGCTTTCCTGTTAATTCAACAAATGTAAGAATCATAAATGAACCCATAGATTTTTAT
AAAACCTTTATCTAGGAATAGGAAAAATGGAAAGCGATTTAGTAGATGCTATTAAGAATA
ATATGAGTGAGAATGACAAATTAAAGGTCAATATCCTATTAGATTTTACTCGTGGAACTC
GTGGCAAAATTAATTCAAAGTTAATGCTAATGCCACTAATTAAACAAAGTACTAATTGCA
CTGTCTCCTTATATCATACACCTTTATTAAGAGGAATCACCAAAAAAATTATTCCTGCTC
GATGGAATGAATTAGTTGGACTTCAACATATGAAAATTTATTTGTTCGATGATTCAGTGA
TAATATCAGGTGCCAATTTGTCAAATGACTATTTTACAAACCGACAAGACCGTTATGTTG
AAATCAATGATCAAAAGCTTTCAAACTTTTTTGCTGAAATTTTAGAAAAAGTGCATGCAT
TTAGTTTGAAAGTTCAAATGAATGGTGAATGCACACTTCATGATAATTGGAAATTTATAC
CTTATGAAAGTAATTATAAAGACTTTGTTAATGAAGCTCGTAAGAGCATTCAGAGTGTCT
TTAAAAAAGCATACGATGAGCAGATAAATAATGATTTAATGAAAAATGATGCAGATACTT
GGCTCTTTCCTACACTTGAGATGGGTCAGTTAAATATTCATCATGATAGTCTAGTAACAA
AGAAAATTTTAAGTGAAGCAAAAGTCGGTTCAAGTTTGAAAATGGCAACTGGATATTTTA
ATTTAACACAAACGTATATGGATTCATTAGTGAATGAATGTAAAGCTGATTGTAGTATTA
TTATGGCTCATCCGAATGCAAATGGTTTTAAAGGTTCTAAATTTCCATCGTCTGGAATTC
CTGATGCCTATTCGTTATTGGCAAAAAAATTTTATAAACAGATCAAAGAACAGAAACAAC
AAAAGCGAATCTCGTTACTCGAATATGAGCGCGAGAAATGGACATATCATGCAAAAGGTC
TTTGGTATCATAGTAATATTAATAATCATCAATCCGAATGGCCTTGCATGACAATTATAG
GTTCATCAAACTACGGAGAACGTTCAGTAAATCGAGACTTGGAAGCTCAAGTATGCATCA
TCACTAAAAGCAAGGAACTTCAACAATCGCTAAAAAATGAATATGATCATATATTGAATT
ATGCTTCTAAAGCCGAAAACCAACTGATTACTCGTGTTATCCCTAATTGGGTCAAGACAG
TTGTACTTTTATTTAAAAAATATTTTTAA

>g3592.t5 Gene=g3592 Length=400
MESDLVDAIKNNMSENDKLKVNILLDFTRGTRGKINSKLMLMPLIKQSTNCTVSLYHTPL
LRGITKKIIPARWNELVGLQHMKIYLFDDSVIISGANLSNDYFTNRQDRYVEINDQKLSN
FFAEILEKVHAFSLKVQMNGECTLHDNWKFIPYESNYKDFVNEARKSIQSVFKKAYDEQI
NNDLMKNDADTWLFPTLEMGQLNIHHDSLVTKKILSEAKVGSSLKMATGYFNLTQTYMDS
LVNECKADCSIIMAHPNANGFKGSKFPSSGIPDAYSLLAKKFYKQIKEQKQQKRISLLEY
EREKWTYHAKGLWYHSNINNHQSEWPCMTIIGSSNYGERSVNRDLEAQVCIITKSKELQQ
SLKNEYDHILNYASKAENQLITRVIPNWVKTVVLLFKKYF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g3592.t5 CDD cd09135 PLDc_PGS1_euk_1 1 129 1.54776E-66
9 g3592.t5 CDD cd09137 PLDc_PGS1_euk_2 191 376 8.3986E-85
7 g3592.t5 Coils Coil Coil 283 303 -
6 g3592.t5 Gene3D G3DSA:3.30.870.10 Endonuclease Chain A 2 183 2.1E-82
5 g3592.t5 Gene3D G3DSA:3.30.870.10 Endonuclease Chain A 184 382 2.1E-82
3 g3592.t5 PANTHER PTHR12586 CDP-DIACYLGLYCEROL–SERINE O-PHOSPHATIDYLTRANSFERASE 1 400 3.3E-139
8 g3592.t5 PIRSF PIRSF000850 PLD_PSS 2 397 1.1E-19
2 g3592.t5 Pfam PF13091 PLD-like domain 3 127 1.4E-6
1 g3592.t5 Pfam PF13091 PLD-like domain 215 368 5.2E-10
13 g3592.t5 ProSiteProfiles PS50035 Phospholipase D phosphodiesterase active site profile. 76 102 10.773
11 g3592.t5 SMART SM00155 pld_4 76 102 5.6E-4
12 g3592.t5 SMART SM00155 pld_4 303 340 82.0
4 g3592.t5 SUPERFAMILY SSF56024 Phospholipase D/nuclease 4 136 2.24E-14

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:0032049 cardiolipin biosynthetic process BP
GO:0008444 CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activity MF
GO:0003824 catalytic 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.

Raw TPM values