Gene detail

Detailed information of OS493_025799-T1 in Lophelia pertusa

Genomic Location: scaffold_129:580229...581880
NR annotation: KAJ7377905.1, Hsp90 cochaperone shq1 [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
A1L1R0	Protein SHQ1 homolog OS=Danio rerio OX=7955 GN=shq1 PE=1 SV=1
Q7TMX5	Protein SHQ1 homolog OS=Mus musculus OX=10090 GN=Shq1 PE=1 SV=2
Q3MHH1	Protein SHQ1 homolog OS=Bos taurus OX=9913 GN=SHQ1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005198 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04925 all species →	SHQ1	SHQ1 protein, Shq1 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR039742 all species →	Family	Protein Shq1	Interproscan
IPR007009 all species →	Domain	Shq1, C-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12967 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000493 all species →	Biological Process	box H/ACA snoRNP assembly	Interproscan
GO:0005654 all species →	Cellular Component	nucleoplasm	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0051082 all species →	Molecular Function	unfolded protein binding	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

No KEGG orthology assignment for OS493_025799-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_025799-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

109TPM > 0

7Conditions

48.0Max TPM

15.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	14.70	30.38
polyp at pH7 6	18	18	16.71	25.77
coral polyp · control treatment	16	16	18.35	47.98
coral polyp · oil and dispersant treatment	16	16	12.93	24.00
coral polyp · oil treatment	16	16	17.97	35.21
coral polyp · dispersant treatment	16	16	9.94	34.40
Polyp	10	9	19.84	47.24

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.38
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.22
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.45
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.88
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.04
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.65
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.48
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.35
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.35
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.97
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.48
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.30
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.30
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.87
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.37
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.76
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.36
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.39
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.77
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.48
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.37
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.49
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.14
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.79
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.86
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.54
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.71
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.61
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.57
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.36
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.21
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.05
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.67
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.51
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.16
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.45
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.98
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.13
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.07
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.42
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.29
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.64
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.64
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.14
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.26
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.60
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.09
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.99
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.12
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.93
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.32
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.02
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.99
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.37
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.83
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.68
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.19
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.69
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.54
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.68
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.43
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.16
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.55
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.76
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.55
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.52
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.21
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.53
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.06
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.68
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.24
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.73
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.31
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.20
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.33
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.05
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.94
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.73
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.60
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.56
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.42
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.97
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.40
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.37
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.38
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.05
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.61
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.54
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.27
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.68
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.62
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.38
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.73
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.44
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.34
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.14
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.97
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.17
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	47.24
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	34.79
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	30.45
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	21.26
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	18.72
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.43
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.44
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	10.37
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.72
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.