Gene detail

Detailed information of FUN_006778-T1 in Siderastrea siderea

Genomic Location: contig_5:4716829...4738237
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_006778-T1

atgtcGTCGGATCCCTGTTCATTTTCCAAACCAAGTGAGTGTGTATGCACGCACATCAGTTGGTTCGTGGATGTTCTGTTTAAGAAACAAATCCTTGACTGTAGAGTGGAGCTAGAGTTTGATGTGAAGAAAAATGGCGTCAGGAACTTGGTCCTGGATACTAGAGACTTAACAATTACCCAAGTAACAAGTGATACAGGAGACGTTCTGAATCACAGCGTGGGTGAAGAGCACAAGGCATTTGGCAAACCACTAAATGTTGATTTACCAGAGGGACtgaaaagTGGCTCTAAGCTTCATGTCAAGATTAGTTACCAGACCTCTTCATCTGCATCGGCTGCTCAGTTTCTTACTCCTGAACAGACTGCTGGGAAAAAACATCCATATTTCTTCACCCAATGTCAGGCAATTCATGCTCGCAGTCTCATTCCATGTCAAGACACGCCCTCTGTGAAGTCACCTTATCAAGCAGAGGTAACTGTTCCTAAAGATCTTGTTGCCTTAATGAGTGCCGTGGGAACAGGGAGCAATATTCACCCCCAACACCCTGACAAAAAGGTGTACACATTCTCTCAGAAGGTTGCTATTCCAAGTTATTTGATTGCTCTTGTTGTTGGGCCTCTTGTCAGCCAgGAAGTTGGCCCCCGTTCGAAGGTGTGGACTGAGAAAGAAATGCTCGAAATAAGTGCTTGGGAGTTTGCAGAGGTTGAGTCCCAGCTTGCCACTGCTGAGGAGTTAACATTCAAATATGTGTGGGGAACGTATGACCTTTTGATTCTGCCTCCTTCATTTCCGTACGGTGGAATGGAGAATCCCTGCCTTACATTCGTGACACCAACACTGTTGGTTGGAGAGGGGGGTGGCAGACCTCTCACAGATGTTGTAGCTCATGAGATCTCACACAGCTGGACAGGAAATCTTGTCACTAACCGAACCTGGGAACATTTTTGGTTAAATGAAGGGTTCACTGTCTTTCTAGAGCGTAAAATTCTTGGACgaagaaaaggcaaaaagatGGTTGATTTTTCCTACATAGGAGGATGGAAAACATTGAAAGATGCACTCAAGGGGTTCCCGGATGAGAGCCCACTGACACAGCTGGTGGTGGACCTTAAAGACACGGACCCTGATGATGCGTTCTCCAGTGTACCGTACGAAAAAGGCTCCTGCTTTTTGTATTACTTGGAGAGGATCCTTGGAGGGCCTGAAGTGTTTGAACCATTCCTTAAATCATATTTGGAAAAGTTCAAGTACCAAACTGTAACAACAGACGACTGGAAAGAATATCTTGAGCAGTATTTCCACGACAAGAAAGATGTCCTGAAGCAGGTTGATTGGAAAGCGTGGCTCTACAAACCTGGAATGCCACCTGTTGACGTGATTGACTGGTATGACACAACCCTGACTGATCCTTGTACTGCCCTGTGTGATCGTTGGCTAAAGGCCGACGAGTCAGAACTTGACTCATTCTCTGCTGATGACATCAAGGACTTCACACCGCCTCAGGTTGTTGAATTCCTAGCTCAGCTTGTAGATAAGACCAACGAGAAGCCACTGGCCTTATCTCATCTCAAGAGAATGGATGAAGTGTACTCTCTCACTCCTTCAAGAAATTCTGAGATCAAGTTTAGGTGGCTGAGACTTTGCGCGCGAGGTGCGCATCAAGATCGTTATCCTGAAACAGTGCAGTTTATCACAATCCAGGGGCGAATGAAGTTCATCAGACCGATATACAAggaGTTGTACGCTCGCGAAGAGTCAAAGGAATTGGCTGTGAAAACATTCAAAGAGCACCGTATTTTTTATCACCCTATTGCTGCGGCACAGATAGCGAAAGATTTGAACCTTGAATGACGAAAGTCGTGAGACAGCAAGATCGATTTTGTGCATAGACAACCCAAGCGCCTATTGTGACGCGCCTGTCGCGTGACCGGTGTTGTGCAAAATCATCGAATTTGCGAATTGCAAAGGTTTATATAGGATTTTAATCGTCACTTTAAGTAGACCCAATTTTAAATCGAATTGAAGTAAATTGCTTAAATGAACTAAAATTGCACTCTATATGTGGAACTTGACGTTATTTTCCTCTACAGCTGCTCTTTCTTGATGTTTTCAGAATTGAATTTTAACACTGTACACAAATTAGCAGGGCAAGAAACTATTTGGATGAATAAATCAACTGGCTCCACGAAAAATCCTCATAAATCATCAAATCATGAAATTAACATTCTTACCTTCAAATTCTTTTGCCCTTTTTCCCTCTACAGTAGTATCCGTCCACAAGCTCCACAGCGCTAAACAATCCattaaaacataaaaaagaCAACCGTCCCTTCAAAGAGCTCCTCTTCAATTGGTCCGTTTACAACACGATGCTGCAAATAATGAAGGGACAGTTGTTTCATGTTTATTGATGTCCTTATTAAGCTTTCTTCAAGCCTGTCAGAATTGTCGAATGGTAGCAACTTGTTCATAAAACAAAACTTAGGAAATTGGTCAAGTCGGGGAAAAGGAGTCGAAGAGGAGACTAGGAGGGACATAACAAGAACTGCGAATTCTACGAAAACTGCAAAATCTGCGAAAACTTCCAAAAATCGTACATTTCGTTATTGCGTTCAAACCTGACATAAGTGCATAAAATCCTTCGTTATTATTTGGCGTTGTGGAGCTTGAGGACAGACACTACTGTCGTGGTCCTTAAGGCAGAAAGAATTTGAAGGTAGGAATTCTTATTTCATGGAATTTATAAGGATTTTGCTTGGAGCCAGTTCATTTATTCATCCAAATAGTTGttaaatttcaattctgaaaacaTCATGAAAGAGCGGCCGTAGAGGGAAAACGACGTCAGAAACCCCTTACAGAATGGAAATTTAGTTCATTTAAGCAATTTTATTTCAATACGTTAAGGGAAGGGCTACACAACACCCATCACGCATCACACTTCGCGCTTGGCTGCCTATGATTTGTGGAAGACCAAAGACCGACTTCACTTTTTCCCTCGACGAAGTTGTCGAAAAAGTAGAGGGAACAGTCACACTGGATGGGGGATAGAAAAGATGATTTTCAAAGTAGACTGAGAAGCCGCTACTGCAGAAGCGAGAATGACGAATTGTGGGGAGGGGGCACTCCGGTTCAGAAGTGACGGACAGCGAGGTGCGAAGTAGCGTTTTGGTCCTTTTTGGagttgcggggggggggggggtgttggcTGGCGGACGGTGAGAACATTTTTTGCCGTTGTTTGTGTGTTTGGATAGCGGGATTTGGAAAGGGGTTATGGCTTTAGCCCATCCCCCCGACACTTTGAGTCCGAGTGCCTCCTTTTCCGATAGAAATGtaatgaaatgaacaaagaaatGAAGTGGAATgatgaaagaagctttaaaaatgAATAGAAAGAAGAAAGATTGAGCCGAGAATGATTCTCGTAGTTaaaaatttataataatttGATGGACGTGATATAAGGATGATAGTTAACAGTTATCCACCGAAGTGGAAGTTTATTTACCTTTCTTCTCTGACACTGAGGTGATAACTTGTTTTAATATATACCAAACCACTGGAGAGCCAGCACCAATATTCTTTTTTTGTATTTCCGAGAAATGAGATAAAATTCGCGCGCGAAACCCAGATACCATCCCCAATTTGAGTTGCAATCAGAgagcgcgaaaaacactatacTGTGAGTCAATAACTGATTGGAACTTCACGTGACTCACATGACCACTTCGAAATGGCACTCCATCTTCAAAGAACCACTAGTACTGTAATGAACCTGCCTTTACCCAGGCGCTCATTGGGATTATCGACACAAGAGCGGCCTGGAAGACCCCCCCTTCCCGGCAGAAGGCTTTACAGAGCGAAAAGGACCAGAAAG

Protein

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01433 all species →	Peptidase_M1	Peptidase family M1 domain	Domain	Interproscan
PF17900 all species →	Peptidase_M1_N	Peptidase M1 N-terminal domain	Domain	Interproscan
PF09127 all species →	Leuk-A4-hydro_C	Leukotriene A4 hydrolase, C-terminal	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR014782 all species →	Domain	Peptidase M1, membrane alanine aminopeptidase	Interproscan
IPR012777 all species →	Family	Leukotriene A4 hydrolase/leucine aminopeptidase	Interproscan
IPR034015 all species →	Family	Aminopeptidase, leukotriene A4 hydrolase-like	Interproscan
IPR045357 all species →	Domain	Aminopeptidase N-like , N-terminal domain	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan
IPR027268 all species →	Homologous_superfamily	Peptidase M4/M1, CTD superfamily	Interproscan
IPR042097 all species →	Homologous_superfamily	Aminopeptidase N-like , N-terminal domain superfamliy	Interproscan
IPR049980 all species →	Domain	Leukotriene A4 hydrolase-like, catalytic domain	Interproscan
IPR015211 all species →	Domain	Peptidase M1, leukotriene A4 hydrolase/aminopeptidase C-terminal	Interproscan
IPR038502 all species →	Homologous_superfamily	Peptidase M1, LTA-4 hydrolase/aminopeptidase, C-terminal domain superfamily	Interproscan
IPR001930 all species →	Family	Peptidase M1, alanine aminopeptidase/leukotriene A4 hydrolase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45726 all species →	LEUKOTRIENE A-4 HYDROLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008237 all species →	Molecular Function	metallopeptidase activity	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0004177 all species →	Molecular Function	aminopeptidase activity	Interproscan
GO:0004301 all species →	Molecular Function	epoxide hydrolase activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0043171 all species →	Biological Process	peptide catabolic process	Interproscan
GO:0006508 all species →	Biological Process	proteolysis	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
K01254	LTA4H; leukotriene-A4 hydrolase	EC:3.3.2.6	Peptidases and inhibitors	ko01002	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_006778-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

78TPM > 0

7Conditions

1,150.6Max TPM

372.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
holobiont · low.pH_high.temp	20	18	411.99	847.52
holobiont · low.pH Control.temp	20	18	343.94	1,053.57
holobiont · control.pH_high.temp	20	19	420.36	1,150.59
holobiont · control.pH Control.temp	19	17	424.12	948.98
Whole organism	4	4	15.66	21.17
unannotated	1	1	24.11	24.11
live coral tissue/skeleton	1	1	19.98	19.98

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR22214408	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	847.52
SRR22214412	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	841.50
SRR22214413	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	760.15
SRR22214421	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	679.11
SRR22214416	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	611.07
SRR22214419	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	577.30
SRR22214410	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	516.58
SRR22214402	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	482.33
SRR22214405	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	440.76
SRR22214418	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	369.90
SRR22214407	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	365.82
SRR22214420	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	362.29
SRR22214423	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	322.23
SRR22214404	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	243.50
SRR22214409	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	227.70
SRR22214414	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	207.01
SRR22214406	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	197.36
SRR22214415	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	187.68
SRR22214403	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
SRR22214438	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	1,053.57
SRR22214430	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	789.22
SRR22214428	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	721.86
SRR22214441	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	710.18
SRR22214443	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	662.97
SRR22214442	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	559.16
SRR22214429	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	488.25
SRR22214427	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	394.42
SRR22214436	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	272.38
SRR22214434	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	225.06
SRR22214424	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	208.41
SRR22214435	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	195.81
SRR22214445	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	164.19
SRR22214431	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	155.97
SRR22214437	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	146.02
SRR22214426	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	66.12
SRR22214440	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	32.65
SRR22214425	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	32.60
SRR22214432	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
SRR22214460	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	1,150.59
SRR22214456	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	1,042.23
SRR22214465	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	767.76
SRR22214457	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	701.77
SRR22214467	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	550.95
SRR22214463	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	538.87
SRR22214464	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	471.17
SRR22214454	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	469.13
SRR22214453	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	422.52
SRR22214450	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	386.07
SRR22214451	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	355.73
SRR22214462	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	300.22
SRR22214458	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	257.88
SRR22214446	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	249.86
SRR22214448	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	227.09
SRR22214459	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	206.00
SRR22214449	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	187.46
SRR22214447	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	69.42
SRR22214452	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	52.43
SRR22214461	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214506	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	948.98
SRR22214466	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	870.65
SRR22214422	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	869.69
SRR22214547	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	736.30
SRR22214548	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	531.88
SRR22214400	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	519.32
SRR22214535	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	474.66
SRR22214471	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	461.14
SRR22214411	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	444.57
SRR22214444	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	422.89
SRR22214468	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	422.70
SRR22214470	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	415.04
SRR22214481	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	381.02
SRR22214492	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	363.47
SRR22214524	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	129.24
SRR22214455	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	42.14
SRR22214469	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	24.63
SRR22214433	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214546	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR14295604	Whole organism	Whole organism	not recorded	not recorded	SRP315757	21.17
SRR14295600	Whole organism	Whole organism	not recorded	not recorded	SRP315757	15.41
SRR14295601	Whole organism	Whole organism	not recorded	not recorded	SRP315757	13.10
SRR14295603	Whole organism	Whole organism	not recorded	not recorded	SRP315757	12.94
ERR12861049	unannotated	not recorded	not recorded	not recorded	ERP159209	24.11
SRR12454619	live coral tissue/skeleton	live coral tissue/skeleton	not recorded	not recorded	SRP277390	19.98

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.