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.t6 TSS g3592.t6 26637303 26637303
chr_3 g3592 g3592.t6 isoform g3592.t6 26637389 26639082
chr_3 g3592 g3592.t6 exon g3592.t6.exon1 26637389 26638808
chr_3 g3592 g3592.t6 cds g3592.t6.CDS1 26637389 26638808
chr_3 g3592 g3592.t6 exon g3592.t6.exon2 26638874 26639082
chr_3 g3592 g3592.t6 cds g3592.t6.CDS2 26638874 26639082
chr_3 g3592 g3592.t6 TTS g3592.t6 26639147 26639147

Sequences

>g3592.t6 Gene=g3592 Length=1629
ATGATAAGTGGAACGAAACGAGGATTTGGTATGATTATTTATTTTATTAAACATTTTGTA
TATTTTCATATTTTATTTATTTCTTTGTTTTTTAGTTTTCAAGTAATTTCTAAATTGATC
GCTATATTTTTAGCTGCATTTACAATGATTCGCAGAGTCTTCTCCACATTCATTGACTAC
CATTCTCCAATCACTCAGTCTGATTTCTTTCAACCATCAACATTTGGAATTCATCGTATC
AAAGAGGAACACTGGCCGATTGATAATTTCTCTTTTCTATTAAATTTCTCACCATGCTTT
CCTGTTAATTCAACAAATGTAAGAATCATAAATGAACCCATAGATTTTTATAAAAGTATC
TTGGAGAATGCTTCAAAAGCAAAATATCGTATATCACTTGCTAGCCTTTATCTAGGAATA
GGAAAAATGGAAAGCGATTTAGTAGATGCTATTAAGAATAATATGAGTGAGAATGACAAA
TTAAAGGTCAATATCCTATTAGATTTTACTCGTGGAACTCGTGGCAAAATTAATTCAAAG
TTAATGCTAATGCCACTAATTAAACAAAGTACTAATTGCACTGTCTCCTTATATCATACA
CCTTTATTAAGAGGAATCACCAAAAAAATTATTCCTGCTCGATGGAATGAATTAGTTGGA
CTTCAACATATGAAAATTTATTTGTTCGATGATTCAGTGATAATATCAGGTGCCAATTTG
TCAAATGACTATTTTACAAACCGACAAGACCGTTATGTTGAAATCAATGATCAAAAGCTT
TCAAACTTTTTTGCTGAAATTTTAGAAAAAGTGCATGCATTTAGTTTGAAAGTTCAAATG
AATGGTGAATGCACACTTCATGATAATTGGAAATTTATACCTTATGAAAGTAATTATAAA
GACTTTGTTAATGAAGCTCGTAAGAGCATTCAGAGTGTCTTTAAAAAAGCATACGATGAG
CAGATAAATAATGATTTAATGAAAAATGATGCAGATACTTGGCTCTTTCCTACACTTGAG
ATGGGTCAGTTAAATATTCATCATGATAGTCTAGTAACAAAGAAAATTTTAAGTGAAGCA
AAAGTCGGTTCAAGTTTGAAAATGGCAACTGGATATTTTAATTTAACACAAACGTATATG
GATTCATTAGTGAATGAATGTAAAGCTGATTGTAGTATTATTATGGCTCATCCGAATGCA
AATGGTTTTAAAGGTTCTAAATTTCCATCGTCTGGAATTCCTGATGCCTATTCGTTATTG
GCAAAAAAATTTTATAAACAGATCAAAGAACAGAAACAACAAAAGCGAATCTCGTTACTC
GAATATGAGCGCGAGAAATGGACATATCATGCAAAAGGTCTTTGGTATCATAGTAATATT
AATAATCATCAATCCGAATGGCCTTGCATGACAATTATAGGTTCATCAAACTACGGAGAA
CGTTCAGTAAATCGAGACTTGGAAGCTCAAGTATGCATCATCACTAAAAGCAAGGAACTT
CAACAATCGCTAAAAAATGAATATGATCATATATTGAATTATGCTTCTAAAGCCGAAAAC
CAACTGATTACTCGTGTTATCCCTAATTGGGTCAAGACAGTTGTACTTTTATTTAAAAAA
TATTTTTAA

>g3592.t6 Gene=g3592 Length=542
MISGTKRGFGMIIYFIKHFVYFHILFISLFFSFQVISKLIAIFLAAFTMIRRVFSTFIDY
HSPITQSDFFQPSTFGIHRIKEEHWPIDNFSFLLNFSPCFPVNSTNVRIINEPIDFYKSI
LENASKAKYRISLASLYLGIGKMESDLVDAIKNNMSENDKLKVNILLDFTRGTRGKINSK
LMLMPLIKQSTNCTVSLYHTPLLRGITKKIIPARWNELVGLQHMKIYLFDDSVIISGANL
SNDYFTNRQDRYVEINDQKLSNFFAEILEKVHAFSLKVQMNGECTLHDNWKFIPYESNYK
DFVNEARKSIQSVFKKAYDEQINNDLMKNDADTWLFPTLEMGQLNIHHDSLVTKKILSEA
KVGSSLKMATGYFNLTQTYMDSLVNECKADCSIIMAHPNANGFKGSKFPSSGIPDAYSLL
AKKFYKQIKEQKQQKRISLLEYEREKWTYHAKGLWYHSNINNHQSEWPCMTIIGSSNYGE
RSVNRDLEAQVCIITKSKELQQSLKNEYDHILNYASKAENQLITRVIPNWVKTVVLLFKK
YF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g3592.t6 CDD cd09135 PLDc_PGS1_euk_1 106 271 1.76028E-81
11 g3592.t6 CDD cd09137 PLDc_PGS1_euk_2 333 518 1.26705E-81
7 g3592.t6 Coils Coil Coil 425 445 -
6 g3592.t6 Gene3D G3DSA:3.30.870.10 Endonuclease Chain A 98 523 4.0E-97
5 g3592.t6 Gene3D G3DSA:3.30.870.10 Endonuclease Chain A 104 325 4.0E-97
3 g3592.t6 PANTHER PTHR12586 CDP-DIACYLGLYCEROL–SERINE O-PHOSPHATIDYLTRANSFERASE 86 542 5.0E-161
1 g3592.t6 Pfam PF13091 PLD-like domain 121 269 6.5E-10
2 g3592.t6 Pfam PF13091 PLD-like domain 357 510 9.7E-10
8 g3592.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 19 -
10 g3592.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 47 -
9 g3592.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 48 542 -
16 g3592.t6 ProSiteProfiles PS50035 Phospholipase D phosphodiesterase active site profile. 218 244 10.773
14 g3592.t6 SMART SM00155 pld_4 218 244 5.6E-4
15 g3592.t6 SMART SM00155 pld_4 445 482 82.0
4 g3592.t6 SUPERFAMILY SSF56024 Phospholipase D/nuclease 84 277 1.88E-21
13 g3592.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 21 43 -

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