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.t4 TSS g3592.t4 26637303 26637303
chr_3 g3592 g3592.t4 isoform g3592.t4 26637373 26638808
chr_3 g3592 g3592.t4 exon g3592.t4.exon1 26637373 26637416
chr_3 g3592 g3592.t4 cds g3592.t4.CDS1 26637373 26637416
chr_3 g3592 g3592.t4 exon g3592.t4.exon2 26637484 26638808
chr_3 g3592 g3592.t4 cds g3592.t4.CDS2 26637484 26638807
chr_3 g3592 g3592.t4 TTS g3592.t4 26639147 26639147

Sequences

>g3592.t4 Gene=g3592 Length=1369
ATGATCAAAAATCAAGATGATAAGTGGAACGAAACGAGGATTTGTTTTCAAGTAATTTCT
AAATTGATCGCTATATTTTTAGCTGCATTTACAATGATTCGCAGAGTCTTCTCCACATTC
ATTGACTACCATTCTCCAATCACTCAGTCTGATTTCTTTCAACCATCAACATTTGGAATT
CATCGTATCAAAGAGGAACACTGGCCGATTGATAATTTCTCTTTTCTATTAAATTTCTCA
CCATGCTTTCCTGTTAATTCAACAAATGTAAGAATCATAAATGAACCCATAGATTTTTAT
AAAAGTATCTTGGAGAATGCTTCAAAAGCAAAATATCGTATATCACTTGCTAGCCTTTAT
CTAGGAATAGGAAAAATGGAAAGCGATTTAGTAGATGCTATTAAGAATAATATGAGTGAG
AATGACAAATTAAAGGTCAATATCCTATTAGATTTTACTCGTGGAACTCGTGGCAAAATT
AATTCAAAGTTAATGCTAATGCCACTAATTAAACAAAGTACTAATTGCACTGTCTCCTTA
TATCATACACCTTTATTAAGAGGAATCACCAAAAAAATTATTCCTGCTCGATGGAATGAA
TTAGTTGGACTTCAACATATGAAAATTTATTTGTTCGATGATTCAGTGATAATATCAGGT
GCCAATTTGTCAAATGACTATTTTACAAACCGACAAGACCGTTATGTTGAAATCAATGAT
CAAAAGCTTTCAAACTTTTTTGCTGAAATTTTAGAAAAAGTGCATGCATTTAGTTTGAAA
GTTCAAATGAATGGTGAATGCACACTTCATGATAATTGGAAATTTATACCTTATGAAAGT
AATTATAAAGACTTTGTTAATGAAGCTCGTAAGAGCATTCAGAGTGTCTTTAAAAAAGCA
TACGATGAGCAGATAAATAATGATTTAATGAAAAATGATGCAGATACTTGGCTCTTTCCT
ACACTTGAGATGGGTCAGTTAAATATTCATCATGATAGTCTAGTAACAAAGAAAATTTTA
AGTGAAGCAAAAGTCGGTTCAAGTTTGAAAATGGCAACTGGATATTTTAATTTAACACAA
ACGTATATGGATTCATTAGTGAATGAATGTAAAGCTGATTGTAGTATTATTATGGCTCAT
CCGAATGCAAATGGTTTTAAAGGTTCTAAATTTCCATCGTCTGGAATTCCTGATGCCTAT
TCGTTATTGGCAAAAAAATTTTATAAACAGATCAAAGAACAGAAACAACAAAAGCGAATC
TCGTTACTCGAATATGAGCGCGAGAAATGGACATATCATGCAAAAGGTCTTTGGTATCAT
AGTAATATTAATAATCATCAATCCGAATGGCCTTGCATGACAATTATAG

>g3592.t4 Gene=g3592 Length=456
MIKNQDDKWNETRICFQVISKLIAIFLAAFTMIRRVFSTFIDYHSPITQSDFFQPSTFGI
HRIKEEHWPIDNFSFLLNFSPCFPVNSTNVRIINEPIDFYKSILENASKAKYRISLASLY
LGIGKMESDLVDAIKNNMSENDKLKVNILLDFTRGTRGKINSKLMLMPLIKQSTNCTVSL
YHTPLLRGITKKIIPARWNELVGLQHMKIYLFDDSVIISGANLSNDYFTNRQDRYVEIND
QKLSNFFAEILEKVHAFSLKVQMNGECTLHDNWKFIPYESNYKDFVNEARKSIQSVFKKA
YDEQINNDLMKNDADTWLFPTLEMGQLNIHHDSLVTKKILSEAKVGSSLKMATGYFNLTQ
TYMDSLVNECKADCSIIMAHPNANGFKGSKFPSSGIPDAYSLLAKKFYKQIKEQKQQKRI
SLLEYEREKWTYHAKGLWYHSNINNHQSEWPCMTII

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g3592.t4 CDD cd09135 PLDc_PGS1_euk_1 89 254 5.53185E-83
10 g3592.t4 CDD cd09137 PLDc_PGS1_euk_2 316 456 4.46441E-55
6 g3592.t4 Coils Coil Coil 408 428 -
4 g3592.t4 Gene3D G3DSA:3.30.870.10 Endonuclease Chain A 81 443 2.7E-82
5 g3592.t4 Gene3D G3DSA:3.30.870.10 Endonuclease Chain A 87 308 2.7E-82
2 g3592.t4 PANTHER PTHR12586 CDP-DIACYLGLYCEROL–SERINE O-PHOSPHATIDYLTRANSFERASE 69 456 8.9E-140
1 g3592.t4 Pfam PF13091 PLD-like domain 104 252 4.6E-10
7 g3592.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
9 g3592.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 33 -
8 g3592.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 34 456 -
14 g3592.t4 ProSiteProfiles PS50035 Phospholipase D phosphodiesterase active site profile. 201 227 10.773
13 g3592.t4 SMART SM00155 pld_4 201 227 5.6E-4
3 g3592.t4 SUPERFAMILY SSF56024 Phospholipase D/nuclease 67 260 1.23E-21
12 g3592.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 32 -

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

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