Gene detail

Detailed information of FUN_027537-T1 in Siderastrea siderea

Genomic Location: contig_27:4672344...4693743
NR annotation: no NCBI-NR hit recorded
Species Siderastrea siderea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

FUN_027537-T1

GGCTGTCTGGGTGAAGGTTTGTTTGTATTTGATGGTGACGATTTTGAAATTCTTGGTTTCTCGTCGATTTACTTCCATGGTTCAACTGTCGGCAGGAATCATGCAACAGAGAAGTTATGAGGATGCTGTGAAGAAGCTGAACTCGCTTCAAACTAATGCTGAAGTGTTGGAGCAAATTCGTCGCAGCCGGGGCCGACTTGCGCGCAACAACTTGCCAGAAATGCGAAGCTTCACAGAAAGAGCTGGAGTGAAAATGGAGGATCTGGATAAACTCTCCATTATCCACATCAGTGGCACAAAAGGAAAGGGCTCAACTTGTGCATTCTGTGAGAGCATCTTACGCCATAAAGGCTTCAAGACTGGATTTTATAGCTCACCACATTTGATGGAAGTTAGAGAGAGGATCAGAATCAATGGCAAACCACTACCCAAGGAAAAATTTGCAAAATACTTTTTTGATTGCTGGGATAATCTCTGTAACAATGGTGACGGCCAGGGGAAAGCCAACATGCCAGCATACTTCAGGTTCTTGACTTTGATGTCATTTCATGTCTTTCTACAAGAGAAGGTTGATGTTGCTGTGATCGAGGTTGGAATTGGAGGTGCTTATGACTCTACAAATATCATCAGGAAACCTGTGGTTTGTGGAGTGACATCCCTTGGCATGGACCATGTCATTACATTGGGTGGGACATTGGAGAGCATTGCATGGCAGAAAGCTGGGATATTCAAGCCTGGGGTACCAGCCTTTACTGTGCCACAACCAGAAAATGCCATGGCAGTTGTAGCTGACAGAGCAAGAGAAATCAAGGCTCCACTCCATGTTGTTCCTTCGTTAGAACACTATCCTGGAAAACTGCCAGACCTTGGCCTGGAGGGAGAACACCAGTACTTGAATGCTTCACTGGCACTTCAGCTTTGTACAACATGGTTACACAGGACACAGGATGAAGACGTCATTGCACAAGTGATCAGACCAATGAGCACAACAGAATCTTCAAGTGGAGAAAACACCTGCACAGATGAGCCGTCATCAAAAAAGGCCAAAGTTGATGTTCCTGTAGCTGAAACATTTGAAGTTCCTGGTGCCTTAAGAAATGGGTTGAAGAATACTAAATGGTGTGGACGAAATCAGGTCATCGTGAGACCATGTGTAACATTCTATTTGGATGGTGCACATACTCCCAAGAGCATGGAGGCTTGTGTAAAATGGTTCAAAAAGAGAGCAGATgaggaaaaacaacaagaaagCGGAAGTGTTGTCCGAGTATTACTGTTTAATCTGACTGGTGGTCGGGATCCTCACAACCTTCTTAGACCACTTATGGATTGCAACTTTGATCATGCAGTTTTCTCACCCAATACAGTGAATCTGGACCCAAAAGCCAGTGATGCAGaTTTGACTAACTTTATGGTGACTCGGGATAGCCAGCTGCGATGGTGTGTGGAAAATCAGCGTGTTTGGATGGCCTTGAGAGGAGCAGGCTTTCAAGCTCACGTAAACCCATCCAGTGACTGTACAGACACTGACCACGTCATAAAAAATGGCCATGATGATGGACCATATTCCACAATATTTCCCTGTGTATCTCAAGCCATTCGGTGGCTTCTAGCCGGCAGGGATCCTCACATACCACCATTGTCTCCTGGAGGCCTTCCATTACCTGATTTCATCTCACAGGCAACAAGACTTCAGGTTCTCGTAGGAGGAAGCTTGCATCTTGTTGGTACAGTGATGAAAGTTCTGGGACCTGAAGTTGTTGGAGATGTGTAGACAAGAACACTGACATGACAGGGTATAAGTGGTTGTGCCAGGAAAGGATAGCATGTCTCTTCTGCAGTGTTTAGGAGGGAATTATGCATTCTGTACAGTACATTCAGTGGTATCAGATTCAACAACTGCTGTGAAAAGTAGCTGTCAAACCTGACCTTTATGATCATCAGTCTTCATCATCAAGATCAGTGAGCAGTCATGCAATGATCATTCCCATCATGCCCAGTCACACAATGTGCGCCGTTGTTTTTGACATGGCTAAGAACTACTGTGATCTGGCAAATCATCCGACTGTATAGAACATGTGGTCAAATCTATCTGAAAAACAGTTCTTATATATGTACATATTACTAAATCATTTTGTAATATCTTTGTTTTAGATGATTAAGGATAGTTCtactgtgttttttttctttttcaaagccagAGTTCAGCTTTTTCTTCTTGTTGGTATATATAGTACATAATAGTGAATACATAATAGATACTTTACATTTAGTCAATTTGCCAGAAAAAGACTCCAAGAAATTCAAATGGAAGTAATGGCCGGATACTGTCAGAATATAACACGCATTTTATATTTTTacttacaaagaaaaaaaaaagcttgacATACATGCAATTTTGTAAGGCTTAAGTACACATTCTCAACTTGATGCCTAAAAGTGTTCTTGACTCCATAATATAGAGAAGATATCTCCTTAcattctttttgttattcaaGTTTGCCAATATTAAAATGAAAGAACTTTGTTTCAACAGCCGGTAGCTGTTTGGTTGGCACATTATTTAATATCAATAGGAAATGTCAacaatattttcgctattgtctCTTGTGCTTTAGAAAGAGATGACATCATTTGTggtgtaaaaataaaaattattgaacCCTTCTTGATTAACAGGGTCAGAATCTATTTTCCTGTAACATAACTCTCCCGTATGAAATATTAGTCAAAAAGAATGatttgttggtttgtttcttGGCATAAGGGAGAACGCTTTTTGAAAAAATAGAATTGAGGTTCACTGTGCTCAAAATGTTCTAATCGATGTAAACAAATCTGTAAACAAATGTTTAATGGCAAATAGCCACAGTCCCTTTTGGGCAGAGTGGACATCTTACAGTTACCTTGCCCCCAAATCTAGCAATATTTTGACctttttcagtttaaaaagaAAGGATTCAACAAAAGAGCCAAAAAGTCACATTGAATGTTTTAGCATAGAGCCGTtctttttcaattattatttataATCTAATAAACGTTGGAAAATGCAATTCAAGATTATCTTCAACATTGAAACTTAAataaaatgttaaaacaaaaCTGTACACTAGAGAATCCTGATACCGTGTTATTGCTTAAGTCTGGGAAGGCAAACCTAACACTACCGAACCTAACTTCCACCTTGTAAAAGAGTAAAGGGGGACATGGAGAGAGGGATAAATATGGAGGGCGGGGTAGGGAGCTGTAAAACGTAATAAGCCGGGAACTTCCCTGACGCTGAGGTAggaaaaaacaagacaaacCTCTAGCAATATTTTGTAATGTGAATGCATGAAATTTATTCCAACTTTATTCAGCTAGTACTACAGAGAATGCTTGGATCTATTAACACTTAACACCATTGGAGGCTTAGAACAGCATTATAATCATCAATGAACTTGCCAGCAAGCAAAAGTCCATTTTATAACTCTACATTTGTGAACTCTTATAAGTTACAAACTTTGCTCTCCATTATTATCCCTTAcggaaaaattttgttttaatttaaacGATCAACATACGaatcatcctcggagacccaggggtaGTTCGTCAGGGCGGACGAAGTTTTCCGTGCAAAAACGGGCCTATAAAAATATTTTCGCTCCTTGATTTGTGCCTTAGAGCTTCGTCTGCCCCGACGTACCTCCCCTAGGTCTCCAAGGATGCATGCGAATGTTCTATAGCGGACCAGCCATGccaatgttttgaagaaaatagTTTGAAATCGTTAAaaaa

Protein

Pfam domain

No Pfam domain signature was detected for FUN_027537-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR001645 all species →	Family	Folylpolyglutamate synthetase	Interproscan
IPR036565 all species →	Homologous_superfamily	Mur-like, catalytic domain superfamily	Interproscan
IPR036615 all species →	Homologous_superfamily	Mur ligase, C-terminal domain superfamily	Interproscan
IPR018109 all species →	Conserved_site	Folylpolyglutamate synthetase, conserved site	Interproscan
IPR023600 all species →	Family	Folylpolyglutamate synthase, eukaryota	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 FUN_027537-T1 across 85 RNA-seq samples of Siderastrea siderea. 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.

85Samples

52TPM > 0

7Conditions

264.5Max TPM

65.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
holobiont · low.pH_high.temp	20	13	82.93	264.51
holobiont · low.pH Control.temp	20	9	48.51	160.95
holobiont · control.pH_high.temp	20	10	57.24	197.85
holobiont · control.pH Control.temp	19	14	89.92	227.24
Whole organism	4	4	15.89	20.49
unannotated	1	1	26.46	26.46
live coral tissue/skeleton	1	1	19.36	19.36

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR22214406	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	264.51
SRR22214405	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	262.92
SRR22214409	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	254.69
SRR22214420	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	217.55
SRR22214404	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	122.86
SRR22214412	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	111.27
SRR22214410	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	93.93
SRR22214415	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	81.94
SRR22214423	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	69.89
SRR22214421	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	55.80
SRR22214407	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	46.05
SRR22214408	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	41.11
SRR22214402	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	36.08
SRR22214403	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214413	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214414	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214416	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214417	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214418	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214419	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214437	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	160.95
SRR22214436	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	145.12
SRR22214442	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	138.97
SRR22214424	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	97.75
SRR22214428	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	95.72
SRR22214426	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	94.64
SRR22214431	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	85.88
SRR22214435	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	84.96
SRR22214430	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	66.13
SRR22214425	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214427	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214429	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214432	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214434	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214438	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214439	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214440	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214441	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214443	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214445	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214449	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	197.85
SRR22214459	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	159.28
SRR22214450	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	150.46
SRR22214464	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	149.64
SRR22214458	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	135.86
SRR22214453	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	112.68
SRR22214454	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	97.67
SRR22214446	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	71.15
SRR22214456	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	39.67
SRR22214457	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	30.51
SRR22214447	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214448	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214451	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214452	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214460	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214461	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214462	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214463	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214465	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214467	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214535	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	227.24
SRR22214470	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	170.35
SRR22214471	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	166.92
SRR22214400	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	164.19
SRR22214468	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	162.25
SRR22214524	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	151.61
SRR22214466	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	145.70
SRR22214411	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	134.27
SRR22214506	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	100.12
SRR22214469	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	84.61
SRR22214481	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	79.64
SRR22214547	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	52.49
SRR22214548	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	39.92
SRR22214546	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	29.26
SRR22214422	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214433	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214444	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214455	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214492	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR14295600	Whole organism	Whole organism	not recorded	not recorded	SRP315757	20.49
SRR14295601	Whole organism	Whole organism	not recorded	not recorded	SRP315757	18.41
SRR14295604	Whole organism	Whole organism	not recorded	not recorded	SRP315757	12.43
SRR14295603	Whole organism	Whole organism	not recorded	not recorded	SRP315757	12.22
ERR12861049	unannotated	not recorded	not recorded	not recorded	ERP159209	26.46
SRR12454619	live coral tissue/skeleton	live coral tissue/skeleton	not recorded	not recorded	SRP277390	19.36

Source: CnidoSite RNA-seq expression matrices (SSIDE_TPM, StringTie quantification over 85 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.