General information for g3592.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as CDP-diacylglycerol–glycerol-3-phosphate 3-phosphatidyltransferase, mitochondrial.
Parent gene
- The parent gene g3592 is located on chr_3: 26639082..26645043 (+ strand)
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.t1 | TSS | g3592.t1 | 26637303 | 26637303 |
| chr_3 | g3592 | g3592.t1 | isoform | g3592.t1 | 26637389 | 26639082 |
| chr_3 | g3592 | g3592.t1 | exon | g3592.t1.exon1 | 26637389 | 26637416 |
| chr_3 | g3592 | g3592.t1 | cds | g3592.t1.CDS1 | 26637389 | 26637416 |
| chr_3 | g3592 | g3592.t1 | exon | g3592.t1.exon2 | 26637522 | 26638808 |
| chr_3 | g3592 | g3592.t1 | cds | g3592.t1.CDS2 | 26637522 | 26638808 |
| chr_3 | g3592 | g3592.t1 | exon | g3592.t1.exon3 | 26638874 | 26639082 |
| chr_3 | g3592 | g3592.t1 | cds | g3592.t1.CDS3 | 26638874 | 26639082 |
| chr_3 | g3592 | g3592.t1 | TTS | g3592.t1 | 26639147 | 26639147 |
Sequences
>g3592.t1 Gene=g3592 Length=1524
ATGATAAGTGGAACGAAACGAGGATTTGCTGCATTTACAATGATTCGCAGAGTCTTCTCC
ACATTCATTGACTACCATTCTCCAATCACTCAGTCTGATTTCTTTCAACCATCAACATTT
GGAATTCATCGTATCAAAGAGGAACACTGGCCGATTGATAATTTCTCTTTTCTATTAAAT
TTCTCACCATGCTTTCCTGTTAATTCAACAAATGTAAGAATCATAAATGAACCCATAGAT
TTTTATAAAAGTATCTTGGAGAATGCTTCAAAAGCAAAATATCGTATATCACTTGCTAGC
CTTTATCTAGGAATAGGAAAAATGGAAAGCGATTTAGTAGATGCTATTAAGAATAATATG
AGTGAGAATGACAAATTAAAGGTCAATATCCTATTAGATTTTACTCGTGGAACTCGTGGC
AAAATTAATTCAAAGTTAATGCTAATGCCACTAATTAAACAAAGTACTAATTGCACTGTC
TCCTTATATCATACACCTTTATTAAGAGGAATCACCAAAAAAATTATTCCTGCTCGATGG
AATGAATTAGTTGGACTTCAACATATGAAAATTTATTTGTTCGATGATTCAGTGATAATA
TCAGGTGCCAATTTGTCAAATGACTATTTTACAAACCGACAAGACCGTTATGTTGAAATC
AATGATCAAAAGCTTTCAAACTTTTTTGCTGAAATTTTAGAAAAAGTGCATGCATTTAGT
TTGAAAGTTCAAATGAATGGTGAATGCACACTTCATGATAATTGGAAATTTATACCTTAT
GAAAGTAATTATAAAGACTTTGTTAATGAAGCTCGTAAGAGCATTCAGAGTGTCTTTAAA
AAAGCATACGATGAGCAGATAAATAATGATTTAATGAAAAATGATGCAGATACTTGGCTC
TTTCCTACACTTGAGATGGGTCAGTTAAATATTCATCATGATAGTCTAGTAACAAAGAAA
ATTTTAAGTGAAGCAAAAGTCGGTTCAAGTTTGAAAATGGCAACTGGATATTTTAATTTA
ACACAAACGTATATGGATTCATTAGTGAATGAATGTAAAGCTGATTGTAGTATTATTATG
GCTCATCCGAATGCAAATGGTTTTAAAGGTTCTAAATTTCCATCGTCTGGAATTCCTGAT
GCCTATTCGTTATTGGCAAAAAAATTTTATAAACAGATCAAAGAACAGAAACAACAAAAG
CGAATCTCGTTACTCGAATATGAGCGCGAGAAATGGACATATCATGCAAAAGGTCTTTGG
TATCATAGTAATATTAATAATCATCAATCCGAATGGCCTTGCATGACAATTATAGGTTCA
TCAAACTACGGAGAACGTTCAGTAAATCGAGACTTGGAAGCTCAAGTATGCATCATCACT
AAAAGCAAGGAACTTCAACAATCGCTAAAAAATGAATATGATCATATATTGAATTATGCT
TCTAAAGCCGAAAACCAACTGATTACTCGTGTTATCCCTAATTGGGTCAAGACAGTTGTA
CTTTTATTTAAAAAATATTTTTAA
>g3592.t1 Gene=g3592 Length=507
MISGTKRGFAAFTMIRRVFSTFIDYHSPITQSDFFQPSTFGIHRIKEEHWPIDNFSFLLN
FSPCFPVNSTNVRIINEPIDFYKSILENASKAKYRISLASLYLGIGKMESDLVDAIKNNM
SENDKLKVNILLDFTRGTRGKINSKLMLMPLIKQSTNCTVSLYHTPLLRGITKKIIPARW
NELVGLQHMKIYLFDDSVIISGANLSNDYFTNRQDRYVEINDQKLSNFFAEILEKVHAFS
LKVQMNGECTLHDNWKFIPYESNYKDFVNEARKSIQSVFKKAYDEQINNDLMKNDADTWL
FPTLEMGQLNIHHDSLVTKKILSEAKVGSSLKMATGYFNLTQTYMDSLVNECKADCSIIM
AHPNANGFKGSKFPSSGIPDAYSLLAKKFYKQIKEQKQQKRISLLEYEREKWTYHAKGLW
YHSNINNHQSEWPCMTIIGSSNYGERSVNRDLEAQVCIITKSKELQQSLKNEYDHILNYA
SKAENQLITRVIPNWVKTVVLLFKKYF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g3592.t1 | CDD | cd09135 | PLDc_PGS1_euk_1 | 71 | 236 | 2.28628E-82 |
| 9 | g3592.t1 | CDD | cd09137 | PLDc_PGS1_euk_2 | 298 | 483 | 7.89221E-83 |
| 7 | g3592.t1 | Coils | Coil | Coil | 390 | 410 | - |
| 6 | g3592.t1 | Gene3D | G3DSA:3.30.870.10 | Endonuclease Chain A | 63 | 488 | 3.1E-97 |
| 5 | g3592.t1 | Gene3D | G3DSA:3.30.870.10 | Endonuclease Chain A | 69 | 290 | 3.1E-97 |
| 3 | g3592.t1 | PANTHER | PTHR12586 | CDP-DIACYLGLYCEROL–SERINE O-PHOSPHATIDYLTRANSFERASE | 51 | 507 | 3.9E-161 |
| 8 | g3592.t1 | PIRSF | PIRSF000850 | PLD_PSS | 53 | 504 | 2.1E-27 |
| 2 | g3592.t1 | Pfam | PF13091 | PLD-like domain | 86 | 234 | 5.7E-10 |
| 1 | g3592.t1 | Pfam | PF13091 | PLD-like domain | 322 | 475 | 8.5E-10 |
| 13 | g3592.t1 | ProSiteProfiles | PS50035 | Phospholipase D phosphodiesterase active site profile. | 183 | 209 | 10.773 |
| 12 | g3592.t1 | SMART | SM00155 | pld_4 | 183 | 209 | 5.6E-4 |
| 11 | g3592.t1 | SMART | SM00155 | pld_4 | 410 | 447 | 82.0 |
| 4 | g3592.t1 | SUPERFAMILY | SSF56024 | Phospholipase D/nuclease | 49 | 242 | 1.64E-21 |
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 transcript has been annotated with K00995 (CDP-diacylglycerol—glycerol-3-phosphate 3-phosphatidyltransferase)
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.
