Gene detail

Detailed information of gfas1.m1.4331.m1 in Galaxea fascicularis

Genomic Location: Sc0000211:74558...84754
NR annotation: XP_020629230.1, folylpolyglutamate synthase, mitochondrial-like isoform X3 [Orbicella faveolata]
Species Galaxea fascicularis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

gfas1.m1.4331.m1

CTTTCATCTTCAATTTCATTGGTGCCACTATTAAAATGGGGGGCTTTGAACATGAAACATGGTTGCCTGCTGATGATTTTTCCAACCTGTTCACTGTCGTGTTGTATATGTCGAGGTTCAGGCAATTTATCGTTCTTCCTTATCGTCAATTGTGAACACCCACTAGTTCCAGACTCTCTCTTGTAAATCTTGCACAACACGTGAAGACAGAGTTCCCTCTGGCAAAGTTCTATTTGTATGTTTTTGATGATCAGTGGATTGAAATTCATGGTTTCTCGTCGGTGTACTTCTGCGGTTCAAGTGTCGACGGAAATCATGTACCAGAGAAGTTATGAGGATGCAGTTAAAAAGCTGAACTCCTTGCAAACTAATGCGCAAGTTCTGGAGCAAATTCGCCTTAGCAGAGGCAGGCTTGTACACAACAACTTGCCAGAAATGCGGAGGTTCACGGAACGGGCTGGAGTAAAAATGGAGGATCTTGATAAATTGTCCATTATCCATGTCAGTGGTACTAAAGGAAAGGGCTCAACTTGTGCTTTCTGTGAAAGCATACTGCGTCATAAAGGCTTTAAGACTGGATTTTACAGCTCACCACATTTAATGGAAGTTAGAGAGAGGATCCGGATCAACGGTAAACCACTAGCAAAAGAGAAGTTTGCAAAATACTTTTTTGACTGCTGGGATAACCTGTACAACAATGGCAATGGGAGTGGAAAAGGCAACATGCCAGCATACTTCAGGTTCCTGACACTGATGTCATTTCACGTTTTTTTGCAGGAGAAGGTCAGTNATGTTGTTGTTCTGGAGGTTGGAATTGGAGGTGCTTATGACTCTACAAATATTATCAGGAAACCTGTGGTTTGTGGAGTAACGTCCCTTGGTATGGACCATGTCAGCATGCTAGGTGGAACGTTAGAAAGTATTGCCTGGCAGAAGGCTGGAATATTCAAGCTAGGAGTACCAGCCTTTACTGTGCCACAACCAGAAAATGCAATGTCTGTTGTGGCTGACAGAGCAAGGGAAATAAAGGCTCCACTTCATGTCGTTCCATATTTAGAGCAATACCCCGGAAAACTACCAGAGCCAATAAACACCACAGAATCATCACCGGTAGAACACAGTTCCAATGAACCTTCAGCCAAAAAATCCAAACTAGGTGTTCCTGTGGCTGAAACATTTGAAGTTCCTGACTCCTTGAGAAATGGCTTAAAAAATACTAAATGGTGTGGACGAAATCAGGTCATTGTGAGACCATGTGTTACATTCTACCTTGATGGTGCACACACACCCAGAAGCATGGAGGCATGTGCACGGTGGTTTAAAAAGAGAGCAGATGAGGAAAAAGAAAAAGAGAGTGGAACTGTCGCTCGAGTGTTGCTTTTCAACCTGACTGGGGAGCGTGATCCTCACAACCTCCTTAGGCCAATCATGGGATGTAGCTTTGATCATGCAATTTTCTCACCCAATACTGCCAACCTGGACCCAAAAAGGAGTGATGCAGATTTGACTAATTTCACTGTAACTCGGGATAGTCAGCTGCAGTGGTGTAGGGAAAATCAACGTATTTGGATGGCTTTAAGAGGAGCAGGATTTCAGTCTCATGTAAAACCATGTAGTCACTGTTCAGACACTGACATTGTAAAAAATGGCTGTGATGATGGGCCATATTCCACAATATTTCCCTGCGTATCTCGAGCGATTCAGTGGGTGTTAGCAGGAAGAGATCCTGTTATACCTCCTCTTTCCCCCGGTGGTCTTCCTGTACCTGATTTCATTTCACAGGCAACAAGAGTCCAAGTTATAGTATGTGGAAGTTTGCATCTTGTAGGTATAGCAATGAAAGTTCTTGGTCCTGAAATTACTGGGGATGTTTAAGCTGGAACATTGGCTTGCAAGAATGCATGGCATGCTGGGAAATGAGAACTTGCACCCTTGTCATGTCATTGTCCAAAGGGTAGCATTGTTCCAGTTCTGTTTAATTGGTTACATGGACAGTAGCAAAGCACTTTGAGAGGCAGCTGTCATCAGCAAATATATAAACAATTAAGAAATACATCATCATTGACGTCATGGGCACTGTCAACTTCATAGTCATCATCATTATCACTTACATTATGTGAATATTTTATTGTTTTGCATTGAAATGCCCCATTTATTTACTAATTTTGTAAAGTTATCATGGAAAACAGTCACATAGGACATAAGTTCAATCTGTAAAATAGTAATTTATTGTTCCTACATAAAATAGCCCTTTGTAGCTAGGTGATGTAACTACATCTTCAAATTAATGGGTATTGTCTGAGGCCTGTTTGGTATAGCCCGTCATTGTTTGAAAAGTACAGTTACCATACAATAAAACGTGGAGAAATACAACGTTATATGATAAATATAATAGTATATATTATATATAATATTGTTATTTTATGGTAATCATACTTAGTTGTAATATAATTGGTTTTCCGTAGGTATTTTCCACAAGGCATAAAGTAGGTAGAGAACTTTTTTATTGCATAGGTGCCTGTTAAATGACCTTGTACTCGCCCTTATGTACATCTTTTGTCAGGCCTTTGGCATCCAGTTTGTTCTGCCAACATAGAATTACGTAAAGAATCATGAATACACCATTTTGCTAATGATCAGTTCCAAGTGAATTGTGGGTAGATCCAGACCATTATGGGGGCAAACGGTCAAAATTTGAATATCAAATTAAGTCTTTAAATGGCCGTTTGCCCCCACAAAGGACTGGATCTACACACAATTCACTCAGAACTTATCATTAGCAAAATGGTGTATTACCTGTGTCAAAATAGTCAAAATATGTGCCTTTAATTTGTCAAAGGTAGTGATAGTTGATAAGTTTAAATGGTCGCATATTTCAAAATCTTGTTTGGGATGACTGAAAATTATCCAAGAACTTGATTTTGTGAGATGGGATTTAGCACTTTCTCTTTGCTGGTATTGCATGTGTGGATATAGATATATTTTTACTTTATCAACAAATTAAACCAGAAAGCAGTGAATGTATTTCACGTAGGTGTTTGCTGTTATTTTTTAATGAACTCCATGTTAACTGAAAAATAAATTTACCATTGTGTTA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q05932	Folylpolyglutamate synthase, mitochondrial OS=Homo sapiens OX=9606 GN=FPGS PE=1 SV=3
A6H751	Folylpolyglutamate synthase, mitochondrial OS=Bos taurus OX=9913 GN=FPGS PE=2 SV=1
Q924L9	Folylpolyglutamate synthase, mitochondrial OS=Cricetulus griseus OX=10029 GN=FPGS PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002827 (this species only)

Pfam domain

No Pfam domain signature was detected for gfas1.m1.4331.m1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR023600 all species →	Family	Folylpolyglutamate synthase, eukaryota	Interproscan
IPR036615 all species →	Homologous_superfamily	Mur ligase, C-terminal domain superfamily	Interproscan
IPR018109 all species →	Conserved_site	Folylpolyglutamate synthetase, conserved site	Interproscan
IPR036565 all species →	Homologous_superfamily	Mur-like, catalytic domain superfamily	Interproscan
IPR001645 all species →	Family	Folylpolyglutamate synthetase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11136 all species →	FOLYLPOLYGLUTAMATE SYNTHASE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004326 all species →	Molecular Function	tetrahydrofolylpolyglutamate synthase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0009396 all species →	Biological Process	folic acid-containing compound biosynthetic process	Interproscan
GO:0009058 all species →	Biological Process	biosynthetic process	Interproscan
GO:0016881 all species →	Molecular Function	acid-amino acid ligase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0046901 all species →	Biological Process	tetrahydrofolylpolyglutamate 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
K01930	FPGS; folylpolyglutamate synthase	EC:6.3.2.17	Antifolate resistance	ko01523	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.m1.4331.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

17TPM > 0

4Conditions

111.2Max TPM

26.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
coral holosome · Control	7	5	23.29	65.17
coral holosome · 30ic treatment	6	5	35.58	111.24
coral holosome · Prometryn (herbicidess) treatment	5	3	14.16	27.32
coral holosome · Prometryn (herbicidess) and 30ic treatment	4	4	34.17	41.47

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR27118480	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	65.17
SRR27118492	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	26.27
SRR27118488	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	25.54
SRR27118487	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	24.54
SRR27118486	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	21.48
SRR27118485	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	0.00
SRR27118491	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	0.00
SRR27118468	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	111.24
SRR27118466	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	30.86
SRR27118479	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	25.23
SRR27118476	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	24.47
SRR27118478	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	21.67
SRR27118477	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	0.00
SRR27118469	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	27.32
SRR27118481	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	27.18
SRR27118482	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	16.29
SRR27118483	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	0.00
SRR27118484	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	0.00
SRR27118490	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	41.47
SRR27118489	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	34.83
SRR27118475	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	31.23
SRR27118472	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	29.15

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.