Gene loci information

Transcript annotation

  • This transcript has been annotated as Phosphatidylserine decarboxylase proenzyme, 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_1 g11204 g11204.t6 isoform g11204.t6 14560809 14565367
chr_1 g11204 g11204.t6 exon g11204.t6.exon1 14560809 14561445
chr_1 g11204 g11204.t6 TTS g11204.t6 14560841 14560841
chr_1 g11204 g11204.t6 cds g11204.t6.CDS1 14561349 14561445
chr_1 g11204 g11204.t6 exon g11204.t6.exon2 14561510 14561720
chr_1 g11204 g11204.t6 cds g11204.t6.CDS2 14561510 14561720
chr_1 g11204 g11204.t6 exon g11204.t6.exon3 14563092 14563561
chr_1 g11204 g11204.t6 cds g11204.t6.CDS3 14563092 14563561
chr_1 g11204 g11204.t6 exon g11204.t6.exon4 14563949 14564106
chr_1 g11204 g11204.t6 cds g11204.t6.CDS4 14563949 14564106
chr_1 g11204 g11204.t6 exon g11204.t6.exon5 14564189 14564564
chr_1 g11204 g11204.t6 cds g11204.t6.CDS5 14564189 14564564
chr_1 g11204 g11204.t6 exon g11204.t6.exon6 14565336 14565367
chr_1 g11204 g11204.t6 cds g11204.t6.CDS6 14565336 14565367
chr_1 g11204 g11204.t6 TSS g11204.t6 14565619 14565619

Sequences

>g11204.t6 Gene=g11204 Length=1884
ATGGCGGTATATTTCATTCCCAAAACAAAATTGATCTCAAGAGCGACAAACAATTTTCGA
CCAAAACAGTGGACGTCGAAATGGACGATAATTAGAAGGCCGTTTTCACAGTCACAACAA
CAATATCACCAACAGAATAGCAATAGTACAAATGCTAAAAATCAAAATACCCGCAAAGGT
AAATTAAATAAAATTAAACATAAATTACAATGGGGTGCGGGCGCTGGTTGGACAATTTTA
TCAATTTTGGATTGGTGGTTATTGGCTGCAGGAGGATGGCTATCATGGCAAGGCGCAATC
TTGCGTTGGACTCCGTTGGGTATATGTATAATCGCTGCTGCACATTGGCATCTGCATAAA
CGTGAATGCGAAAGAAGAGGTCTTCCAAAAACAGCCACTGCATGGCAGACAAATGTATAT
TGTTCGCTTCCGTTGAGACTCATGAGTAGATGTTGGGGTTGGCTTGCAGACCGAGAAGTG
CCTGAAATTCTTCGACCGTCCATATTTGGAATTTATTCGTCATCATTTGGTGTTAATCTT
GAAGAGGCTGTTGTATCAGATTTAAAATATTATCGAAGTCTGTCAGAATTTTTTACCCGA
TCAATTAAAGAAGAATGCCGGACAATAGCATCAGACTGTGTTGTTTCGCCATGTGACGGC
CGTGTACTTCATTGCGGAATCGTTACTAACGAAACACATTTAGAACAAGTCAAAGGTGTT
ACATATAGTCTGGAATCATTTCTTGGACCAAAATGGAAAAAAGACACATCTTCATCTGCA
TCATATATTGAAAATTTGAAGCAAAATCAAGAAGGAACAAATTTATATCATTGTGTGATA
TATCTTGCACCTGGTGATTATCATAGATTTCATTCGCCCACGTCTTGGAAACCCAATATT
CGACGTCATTTTCATGGTGAACTTTTATCAGTGAATCCAAAAATTGCAAATTTAGTACCT
GGACTTTTTTGCATTAATGAACGAGCAGCTTACATAGGCGAATGGGAACATGGATTTTTC
AGTTTCACAGCTGTTGGTGCAACAAACGTTGGTTCAGTACAAGTTTTTATCGATCAAGAT
TTAAAGACAAATCGTTGGCGTGGACTTAAAGTTGGGACGATGCGTGAAAAAGATTTCGAT
GAGCTGGCGATGAATAATGATATATTTCTCAATAAAGGTGAATTATTGGGTCAATTCAAT
ATGGGTAGTACAATCGTTCTAGTTTTTGAGGCACCAAGTTCATTTAGATTTAATTTGTCA
CCAAATCAAGGAGTGAAAGTTGGTCAGAGTCTCGGATGTATTTATGACAACGATAATGAC
AGTGGAATGGAAAGTGAAGAATGATTTGTATATTTACTTGTAGTATAGTGCCATAATCAA
ATTTGCTTCTGAGATACCGAAAAAAGAAGAAAATAATTAAAAATATAGTCAGGGTTATTT
TAAAATCAATGCCGTTATCATAGGAAAAGAAAAATAGATTTTCTTGAGATACCAAAAATT
AGATTGTCTTGATTCTTCATATGCTTTTATGTATATAAAAGTTACCTCCCTAGCAATTGA
GTAAATAAATAGCAATCACTTGTTACTATGCGCATATGAAGTGTAAAACTACAAAATTAC
AAATTGTGATACTTTTTATGACGATGATTTGATATAAACTTTGAAAATTAGTAAAAACAT
AGCTAGGATTTTTTCGAATGAAACTTTTTCTTTTAGTTTTTTTTTCAAAAGTTTTTATTT
CTAAAAGCTTTTAATTTTTTTTTAAACAATAGAGATATGAAGAGATTCAACAGTTATAAT
TAAATTAGTATATATGCAAATAGGAATTTATTTGAAAATAAAGAATTGTAATAAAAAATT
TTATATTTTGTGATTTATATTGTT

>g11204.t6 Gene=g11204 Length=447
MAVYFIPKTKLISRATNNFRPKQWTSKWTIIRRPFSQSQQQYHQQNSNSTNAKNQNTRKG
KLNKIKHKLQWGAGAGWTILSILDWWLLAAGGWLSWQGAILRWTPLGICIIAAAHWHLHK
RECERRGLPKTATAWQTNVYCSLPLRLMSRCWGWLADREVPEILRPSIFGIYSSSFGVNL
EEAVVSDLKYYRSLSEFFTRSIKEECRTIASDCVVSPCDGRVLHCGIVTNETHLEQVKGV
TYSLESFLGPKWKKDTSSSASYIENLKQNQEGTNLYHCVIYLAPGDYHRFHSPTSWKPNI
RRHFHGELLSVNPKIANLVPGLFCINERAAYIGEWEHGFFSFTAVGATNVGSVQVFIDQD
LKTNRWRGLKVGTMREKDFDELAMNNDIFLNKGELLGQFNMGSTIVLVFEAPSSFRFNLS
PNQGVKVGQSLGCIYDNDNDSGMESEE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g11204.t6 Hamap MF_03208 Phosphatidylserine decarboxylase proenzyme [PISD]. 53 434 28.958693
2 g11204.t6 PANTHER PTHR10067:SF6 PHOSPHATIDYLSERINE DECARBOXYLASE PROENZYME, MITOCHONDRIAL 27 436 1.1E-110
3 g11204.t6 PANTHER PTHR10067 PHOSPHATIDYLSERINE DECARBOXYLASE 27 436 1.1E-110
1 g11204.t6 Pfam PF02666 Phosphatidylserine decarboxylase 194 432 5.2E-61
7 g11204.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 68 -
10 g11204.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 69 88 -
8 g11204.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 89 99 -
9 g11204.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 100 118 -
6 g11204.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 119 447 -
5 g11204.t6 TIGRFAM TIGR00163 PS_decarb: phosphatidylserine decarboxylase 183 433 5.3E-67

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:0008654 phospholipid biosynthetic process BP
GO:0005739 mitochondrion CC
GO:0004609 phosphatidylserine decarboxylase 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