Gene detail

Detailed information of gfas1.m1.16005.m1 in Galaxea fascicularis

Genomic Location: xfSc0000219:103509...109790
NR annotation: XP_029194351.2, phosphatidylserine decarboxylase proenzyme, mitochondrial-like isoform X2 [Acropora millepora]
Species Galaxea fascicularis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

gfas1.m1.16005.m1

TGTTTCTTCAACCCAGGCCTTTCGGAAAAATACTGTTCGGGGAGGCTGTCTATTGTCCTCATCAAGCTATTCGAAAGCTTGTAATTTTGTGCTGAGGGAAGCATAGAAGAGAGAAAAGCGACATTAAAAGTCCTCAACTGAACTTACTTTAAAAATGCGAGTGCACGCTGATGACGATCTCGTTTTTGCTGGCTATCGCCATGTTGATATTAGACATGACTCCGCTTGGATCATGTCTTGTGTTCTTTATGCCCATTCGGCAATCTGTCTCATCGTGATCATGGCCTTTGCAAGCTATGGCCTTGTTTGGCCTGTAAGAGAAAAAGACAATCTTCTACACAAGACTACAACGAAAGGCGCAAAAAGACTCCACACGGCAGTGAGAAGCTACTTGGGCACTCTGCGATGGTTTAGCATCCCAGCAAGTGTTGGTTTCGCTTACGTGTGCTATCAGCAGTTCTGGCATATCAAGGAGAGAGAGGAAAGAAGACTCAAATATGGGGGTTCTGTCGAACCCAGTCAATGGCGGGTTGCCTTGTACAGGAAACTGCCAACAAGAGCTCTTTCCCGTGTTTGGGGCAAATTCTGCGACATGGACTTACCGCTGTGGCTTCGTAAACCCGTTATAGGAACATTTTCCTGGTATTTTGCCTGCAATGTTGCGGAAGCAATCGAAGAGGAAATTATAAACTATCCCAGCGTTGGTGCTTTCTTCAAGAGACAACTCAAACCAGAGGCTAGAAAGATCTGCGATGCTAGTTCCATTGTTAGTCCAGCTGATGGACGTGTACTTCATTTTGGCGTTGTGGAAAATCACATGGTAGAACAAGTCAAGGGAATAACTTATTCAATGAAAACCTTTCTTGGACCTGATCAACCACCTGCTTCCACACTAAAGGAATTACAGTCAAGCAACGATAAGAGACTCTACCATTGTATTGTTTATCTGGCACCAGGTGACTACCATTCGTTTCACTCACCAAGTGAATGGGATGTCAAACTAAGGAGACATTTCCCAGGTGATCTGTTCTCAGTCCACCCAGGAATTGCAAGAATAATCACTGGTTTGTTCAACCATAATGAACGTGTTGTTTTAAGTGGTACCTGGAAGCATGGATTTTTCAGTTTAACCGCTGTTGGGGCTTACAATGTTGGATCTATTAACCTCAAGTTTGATGAGGATTTGAAAACCAATCGTGCAGAGAGTTACACCCCAGGTTCATTTGATGAGCTGGATTATGTTCATGATAAGGGTGATAAAGTGTCCCTGACACGTGGCGAAAGAATGGGTGCTTTTAACCTTGGTTCAACTATCGTCCTGATATTTGAAGCACCCAAAGACTTTGAATTTCACATTCAACCAGGACAGAAACTAAATTATGGTGAACCAGTAGGATCATCCAGAGAGTGTGCAGAATAAAGTAATTTAGCATTTATAGACATAGCAATAATTTTATAGTTTAGCTGTTAGGGGCATTTGATTTCTGACAATTTAAAACAACTGTTTTTTTCAAAGATACTTTTTCAGTTGTTTGGAAAGTAATTAATATTTGAATGTAAGGACTACACCCTGAACCAAGTTAGTGGTTAAGGCTTTGTCTTGCTGTAATTTCTAGAAAGTTTGTTATTGAAGGGATATGTAAAAAGATACAGGAACAATAATAATTGTGAATATAGGTGTGCAATGTCAGTTGTTGAAATGTCTTTCTTATTCAGAATTCATTTAATTGGCTTGTTGCTATTTCAAATTCTTCTCTATCAAGCATTAAGTCATGAATAACAGCTTTGCAGTTGTTTTCCTTAGTTAAAATTAAGACCTGTAAAGGTGAATGTAAGTCAGTGCCAGGGCCATCACGAGCAATAAGGCTTTTTCTGCCAAAGGTTAATGACTGCCCTGAGATACTCATTAGCTTAATTTCTAGTAACATTATTCTATTACTAGTTATCAGTTTGGAGCTGATAAACTAACAAGTTGCCAAAATAGCCTTATTTGGTGAGGCCTTCAAGAACTAGTAACATTGTTAATGTTTTGCTTGAAAGTGACTTTTGGTCTTCAGTATCTTTTTCCTTCAAAGTACGAGTCTCTTTGGAGGGTTTTTGCAGCTAAGTGTAGCAGTTATTAACTTTGAATCAAAATGTCAAATTGACTTCTAATTTACTATGTGACTCAATAATATTATTATAATAATTGTAAACCAACAGACCATTTCCAAATTACCTCAGGCCTCTTTTTTAAAGCAAGTCAAGGTGCTCATCCCTTCATATGCAAATCAAACTCATTTTCATGTGAATGAAAATTGATTTGCACATGAAAGGATGAGCACCAAGACTTGCTCTCAAAAAGTGGCCTGAGGTAATTTGAGTTTAAGAACAAATTTGTAAAATCTGTATAAAGATGAAAAAAGTATATATTTATTGTTGGTTAAGTACTAATTCATTTATAGGGAAAAGTTTTATCAGTTGAATACATGTTACTTACATCACTGTGTACATTTATTTTTTAAACAAAAACAAAAACAAAAAAAATTTCTCTGAAGGTTGAATTCCAATGGATTTACCGCCACTGATTTTGGTGCTGGCAGCAATAAAAGAAATTTAGACGAAAGTTGCTGTTATCCTAGCTTAGTCCTGTTGTTGTAGTTAGTTAAGTTGTTCTTAAACTGTTAGGCCACATAGAGTGCAAAATTGGCAAAACAGCTGTCTTAAAATGATCTGTCAACTTTCTAGACGACTGCACTACGCTGGACACTCAATAAAAAAGTTTGATTCTCCA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P27465	Phosphatidylserine decarboxylase proenzyme, mitochondrial OS=Cricetulus griseus OX=10029 GN=Pisd PE=1 SV=2
Q5R8I8	Phosphatidylserine decarboxylase proenzyme, mitochondrial OS=Pongo abelii OX=9601 GN=PISD PE=2 SV=1
Q9UG56	Phosphatidylserine decarboxylase proenzyme, mitochondrial OS=Homo sapiens OX=9606 GN=PISD PE=1 SV=4

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003604 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02666 all species →	PS_Dcarbxylase	Phosphatidylserine decarboxylase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003817 all species →	Family	Phosphatidylserine decarboxylase-related	Interproscan
IPR033661 all species →	Family	Phosphatidylserine decarboxylase, eukaryotic type 1	Interproscan
IPR033177 all species →	Family	Phosphatidylserine decarboxylase, bacterial/eukaryotic	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10067 all species →	PHOSPHATIDYLSERINE DECARBOXYLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004609 all species →	Molecular Function	phosphatidylserine decarboxylase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006646 all species →	Biological Process	phosphatidylethanolamine biosynthetic process	Interproscan
GO:0008654 all species →	Biological Process	phospholipid biosynthetic process	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K01613	psd, PISD; phosphatidylserine decarboxylase	EC:4.1.1.65	Glycerophospholipid metabolism	ko00564	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of gfas1.m1.16005.m1 across 22 RNA-seq samples of Galaxea fascicularis. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

22Samples

19TPM > 0

4Conditions

260.5Max TPM

103.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
coral holosome · Control	7	6	101.08	183.41
coral holosome · 30ic treatment	6	6	117.89	217.42
coral holosome · Prometryn (herbicidess) treatment	5	3	52.28	148.00
coral holosome · Prometryn (herbicidess) and 30ic treatment	4	4	148.33	260.52

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR27118491	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	183.41
SRR27118492	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	168.58
SRR27118480	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	129.89
SRR27118488	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	107.18
SRR27118486	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	62.22
SRR27118487	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	56.29
SRR27118485	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	0.00
SRR27118468	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	217.42
SRR27118478	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	113.71
SRR27118479	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	113.57
SRR27118476	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	108.40
SRR27118466	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	101.70
SRR27118477	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	52.53
SRR27118469	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	148.00
SRR27118481	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	60.76
SRR27118484	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	52.65
SRR27118482	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	0.00
SRR27118483	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	0.00
SRR27118489	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	260.52
SRR27118490	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	145.05
SRR27118472	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	108.00
SRR27118475	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	79.73

Source: CnidoSite RNA-seq expression matrices (GFASC_TPM, StringTie quantification over 22 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.