Gene detail

Detailed information of OS493_002311-T1 in Lophelia pertusa

Genomic Location: scaffold_5:486780...501338
NR annotation: KAJ7365606.1, hypothetical protein OS493_002311 [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
Q9HBI1	Beta-parvin OS=Homo sapiens OX=9606 GN=PARVB PE=1 SV=1
Q9ES46	Beta-parvin OS=Mus musculus OX=10090 GN=Parvb PE=1 SV=1
Q9NVD7	Alpha-parvin OS=Homo sapiens OX=9606 GN=PARVA PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005368 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00307 all species →	CH	Calponin homology (CH) domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001715 all species →	Domain	Calponin homology domain	Interproscan
IPR036872 all species →	Homologous_superfamily	CH domain superfamily	Interproscan
IPR028433 all species →	Family	Parvin	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12114 all species →	PARVIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0003779 all species →	Molecular Function	actin binding	Interproscan
GO:0007155 all species →	Biological Process	cell adhesion	Interproscan
GO:0030036 all species →	Biological Process	actin cytoskeleton organization	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005925 all species →	Cellular Component	focal adhesion	Interproscan
GO:0007163 all species →	Biological Process	establishment or maintenance of cell polarity	Interproscan
GO:0015629 all species →	Cellular Component	actin cytoskeleton	Interproscan
GO:0030031 all species →	Biological Process	cell projection assembly	Interproscan
GO:0031532 all species →	Biological Process	obsolete actin cytoskeleton reorganization	Interproscan
GO:0034446 all species →	Biological Process	substrate adhesion-dependent cell spreading	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
K06275	PARV; parvin	-	Exosome	ko04147	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_002311-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

41.4Max TPM

18.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	18.74	27.48
polyp at pH7 6	18	18	18.62	28.89
coral polyp · control treatment	16	16	21.76	36.52
coral polyp · oil and dispersant treatment	16	16	16.13	27.61
coral polyp · oil treatment	16	16	19.43	41.37
coral polyp · dispersant treatment	16	16	18.59	30.07
Polyp	10	10	10.31	16.63

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	-	27.48
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.31
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.20
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.08
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.38
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.39
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.33
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.74
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.87
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.63
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.59
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.97
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.64
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.40
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.70
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.28
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.66
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.58
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.89
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.58
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.41
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.51
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.07
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.01
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.85
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.51
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.44
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.15
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.96
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.78
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.60
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.30
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.66
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.86
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.81
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.77
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.52
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.05
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.79
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.91
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.52
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.77
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.44
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.33
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.27
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.59
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.40
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.26
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.22
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.16
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.32
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.62
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.61
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.54
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.41
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.57
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.67
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.28
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.11
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.82
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.29
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.22
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.36
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.88
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.53
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.59
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.38
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.88
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.37
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.44
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.99
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.76
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.14
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.97
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.92
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.87
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.49
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.85
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.85
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.57
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.11
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.48
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.12
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.07
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.31
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.19
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.57
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.53
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.52
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.88
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.45
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.30
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.30
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.30
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.80
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.19
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.37
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.29
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.33
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	16.63
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	14.84
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	13.77
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	11.78
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	10.65
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.50
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.87
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.91
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	5.19
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.92

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.