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.t2 TSS g3592.t2 26637303 26637303
chr_3 g3592 g3592.t2 isoform g3592.t2 26637373 26639082
chr_3 g3592 g3592.t2 exon g3592.t2.exon1 26637373 26637416
chr_3 g3592 g3592.t2 cds g3592.t2.CDS1 26637373 26637416
chr_3 g3592 g3592.t2 exon g3592.t2.exon2 26637484 26638808
chr_3 g3592 g3592.t2 cds g3592.t2.CDS2 26637484 26638808
chr_3 g3592 g3592.t2 exon g3592.t2.exon3 26638874 26639082
chr_3 g3592 g3592.t2 cds g3592.t2.CDS3 26638874 26639082
chr_3 g3592 g3592.t2 TTS g3592.t2 26639147 26639147

Sequences

>g3592.t2 Gene=g3592 Length=1578
ATGATCAAAAATCAAGATGATAAGTGGAACGAAACGAGGATTTGTTTTCAAGTAATTTCT
AAATTGATCGCTATATTTTTAGCTGCATTTACAATGATTCGCAGAGTCTTCTCCACATTC
ATTGACTACCATTCTCCAATCACTCAGTCTGATTTCTTTCAACCATCAACATTTGGAATT
CATCGTATCAAAGAGGAACACTGGCCGATTGATAATTTCTCTTTTCTATTAAATTTCTCA
CCATGCTTTCCTGTTAATTCAACAAATGTAAGAATCATAAATGAACCCATAGATTTTTAT
AAAAGTATCTTGGAGAATGCTTCAAAAGCAAAATATCGTATATCACTTGCTAGCCTTTAT
CTAGGAATAGGAAAAATGGAAAGCGATTTAGTAGATGCTATTAAGAATAATATGAGTGAG
AATGACAAATTAAAGGTCAATATCCTATTAGATTTTACTCGTGGAACTCGTGGCAAAATT
AATTCAAAGTTAATGCTAATGCCACTAATTAAACAAAGTACTAATTGCACTGTCTCCTTA
TATCATACACCTTTATTAAGAGGAATCACCAAAAAAATTATTCCTGCTCGATGGAATGAA
TTAGTTGGACTTCAACATATGAAAATTTATTTGTTCGATGATTCAGTGATAATATCAGGT
GCCAATTTGTCAAATGACTATTTTACAAACCGACAAGACCGTTATGTTGAAATCAATGAT
CAAAAGCTTTCAAACTTTTTTGCTGAAATTTTAGAAAAAGTGCATGCATTTAGTTTGAAA
GTTCAAATGAATGGTGAATGCACACTTCATGATAATTGGAAATTTATACCTTATGAAAGT
AATTATAAAGACTTTGTTAATGAAGCTCGTAAGAGCATTCAGAGTGTCTTTAAAAAAGCA
TACGATGAGCAGATAAATAATGATTTAATGAAAAATGATGCAGATACTTGGCTCTTTCCT
ACACTTGAGATGGGTCAGTTAAATATTCATCATGATAGTCTAGTAACAAAGAAAATTTTA
AGTGAAGCAAAAGTCGGTTCAAGTTTGAAAATGGCAACTGGATATTTTAATTTAACACAA
ACGTATATGGATTCATTAGTGAATGAATGTAAAGCTGATTGTAGTATTATTATGGCTCAT
CCGAATGCAAATGGTTTTAAAGGTTCTAAATTTCCATCGTCTGGAATTCCTGATGCCTAT
TCGTTATTGGCAAAAAAATTTTATAAACAGATCAAAGAACAGAAACAACAAAAGCGAATC
TCGTTACTCGAATATGAGCGCGAGAAATGGACATATCATGCAAAAGGTCTTTGGTATCAT
AGTAATATTAATAATCATCAATCCGAATGGCCTTGCATGACAATTATAGGTTCATCAAAC
TACGGAGAACGTTCAGTAAATCGAGACTTGGAAGCTCAAGTATGCATCATCACTAAAAGC
AAGGAACTTCAACAATCGCTAAAAAATGAATATGATCATATATTGAATTATGCTTCTAAA
GCCGAAAACCAACTGATTACTCGTGTTATCCCTAATTGGGTCAAGACAGTTGTACTTTTA
TTTAAAAAATATTTTTAA

>g3592.t2 Gene=g3592 Length=525
MIKNQDDKWNETRICFQVISKLIAIFLAAFTMIRRVFSTFIDYHSPITQSDFFQPSTFGI
HRIKEEHWPIDNFSFLLNFSPCFPVNSTNVRIINEPIDFYKSILENASKAKYRISLASLY
LGIGKMESDLVDAIKNNMSENDKLKVNILLDFTRGTRGKINSKLMLMPLIKQSTNCTVSL
YHTPLLRGITKKIIPARWNELVGLQHMKIYLFDDSVIISGANLSNDYFTNRQDRYVEIND
QKLSNFFAEILEKVHAFSLKVQMNGECTLHDNWKFIPYESNYKDFVNEARKSIQSVFKKA
YDEQINNDLMKNDADTWLFPTLEMGQLNIHHDSLVTKKILSEAKVGSSLKMATGYFNLTQ
TYMDSLVNECKADCSIIMAHPNANGFKGSKFPSSGIPDAYSLLAKKFYKQIKEQKQQKRI
SLLEYEREKWTYHAKGLWYHSNINNHQSEWPCMTIIGSSNYGERSVNRDLEAQVCIITKS
KELQQSLKNEYDHILNYASKAENQLITRVIPNWVKTVVLLFKKYF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g3592.t2 CDD cd09135 PLDc_PGS1_euk_1 89 254 5.65555E-82
11 g3592.t2 CDD cd09137 PLDc_PGS1_euk_2 316 501 1.16731E-82
7 g3592.t2 Coils Coil Coil 408 428 -
6 g3592.t2 Gene3D G3DSA:3.30.870.10 Endonuclease Chain A 81 506 3.6E-97
5 g3592.t2 Gene3D G3DSA:3.30.870.10 Endonuclease Chain A 87 308 3.6E-97
3 g3592.t2 PANTHER PTHR12586 CDP-DIACYLGLYCEROL–SERINE O-PHOSPHATIDYLTRANSFERASE 69 525 4.4E-161
2 g3592.t2 Pfam PF13091 PLD-like domain 104 252 6.1E-10
1 g3592.t2 Pfam PF13091 PLD-like domain 340 493 9.1E-10
8 g3592.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
10 g3592.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 33 -
9 g3592.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 34 525 -
16 g3592.t2 ProSiteProfiles PS50035 Phospholipase D phosphodiesterase active site profile. 201 227 10.773
14 g3592.t2 SMART SM00155 pld_4 201 227 5.6E-4
15 g3592.t2 SMART SM00155 pld_4 428 465 82.0
4 g3592.t2 SUPERFAMILY SSF56024 Phospholipase D/nuclease 67 260 1.73E-21
13 g3592.t2 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