Gene detail

Detailed information of OS493_012157-T1 in Lophelia pertusa

Genomic Location: scaffold_31:2512455...2513795
NR annotation: KAJ7392491.1, Tissue alpha-L-fucosidase [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
C3YWU0	Alpha-L-fucosidase OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_56888 PE=3 SV=2
P48300	Tissue alpha-L-fucosidase OS=Canis lupus familiaris OX=9615 GN=FUCA1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000718 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16757 all species →	Fucosidase_C	Alpha-L-fucosidase C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR031919 all species →	Domain	Alpha-L-fucosidase, C-terminal	Interproscan
IPR013780 all species →	Homologous_superfamily	Glycosyl hydrolase, all-beta	Interproscan

PANTHER

No PANTHER signature was detected for OS493_012157-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

No Gene Ontology signature was detected for OS493_012157-T1. This gene does have a gene model — the search simply returned no hit.

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

No KEGG orthology assignment for OS493_012157-T1.

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_012157-T1 across 110 RNA-seq samples of Lophelia pertusa. 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.

110Samples

110TPM > 0

7Conditions

156.2Max TPM

66.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	68.76	80.12
polyp at pH7 6	18	18	71.61	85.36
coral polyp · control treatment	16	16	74.71	156.24
coral polyp · oil and dispersant treatment	16	16	60.07	89.63
coral polyp · oil treatment	16	16	76.22	118.88
coral polyp · dispersant treatment	16	16	55.73	127.07
Polyp	10	10	47.06	116.23

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	80.12
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	79.69
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	78.12
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	76.94
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	75.67
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	75.01
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	74.84
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	73.95
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	72.69
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	71.36
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.59
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	64.31
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.32
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.25
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.62
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.10
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.17
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	85.36
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	85.27
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	82.36
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	81.74
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	81.02
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	80.43
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	79.19
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	75.87
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	74.67
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	74.60
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	73.83
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	73.74
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	68.33
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	67.41
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	61.48
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.46
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.08
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.11
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	156.24
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	130.23
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	96.33
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	82.25
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	82.10
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	79.74
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.76
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	76.75
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	75.37
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	70.73
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.17
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.94
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.11
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.44
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.11
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.11
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	89.63
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.36
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.60
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	79.34
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	78.24
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	76.93
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.91
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.65
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.05
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.05
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.36
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.79
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.40
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.97
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.63
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.26
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	118.88
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	104.67
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	101.48
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	101.30
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	99.01
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	87.20
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	82.73
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	81.03
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	74.97
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.33
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.20
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.10
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.89
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.36
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.10
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.20
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	127.07
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	90.08
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	87.55
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	73.20
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	73.02
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	67.34
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	59.31
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.91
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.13
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.11
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.22
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.20
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.55
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.93
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.00
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	116.23
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	74.76
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	58.95
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	49.08
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	45.87
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	43.39
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	30.56
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	20.63
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	18.73
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	12.36

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 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.