Gene detail

Detailed information of OS493_003028-T1 in Lophelia pertusa

Genomic Location: scaffold_6:3896682...3903549
NR annotation: KAJ7340295.1, plus-end directed microfilament motor [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003028 (this species only)
Ubiquitin family	UBD\|Other\|SH3 · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07653 all species →	SH3_2	Variant SH3 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051567 all species →	Family	Unconventional Myosin ATPase	Interproscan
IPR001452 all species →	Domain	SH3 domain	Interproscan
IPR036028 all species →	Homologous_superfamily	SH3-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22692 all species →	MYOSIN VII, XV	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	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_003028-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_003028-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

47.4Max TPM

22.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	21.68	33.24
polyp at pH7 6	18	18	19.98	30.83
coral polyp · control treatment	16	16	28.17	47.41
coral polyp · oil and dispersant treatment	16	16	22.03	38.82
coral polyp · oil treatment	16	16	20.87	35.66
coral polyp · dispersant treatment	16	16	28.08	37.21
Polyp	10	10	8.14	16.89

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.24
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.96
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.44
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.39
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.94
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.13
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.98
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.89
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.66
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.18
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.10
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.00
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.33
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.28
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.80
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.05
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.69
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.12
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.83
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.93
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.78
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.34
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.24
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.23
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.63
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.33
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.28
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.37
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.65
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.84
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.21
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.86
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.14
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.12
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.07
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.85
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.41
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.03
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.88
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.73
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.47
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.58
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.89
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.46
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.72
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.17
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.00
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.51
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.09
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.69
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.95
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.10
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.82
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.74
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.90
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.61
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.32
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.03
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.72
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.73
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.58
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.17
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.53
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.95
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.80
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.47
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.12
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.66
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.22
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.43
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.70
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.54
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.33
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.41
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.27
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.24
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.41
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.60
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.48
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.13
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.10
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.88
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.55
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.21
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.94
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.49
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.43
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.14
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.28
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.57
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.08
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.73
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.44
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.71
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.57
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.80
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.29
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.80
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.80
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	16.89
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.45
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.27
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	9.50
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.53
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.83
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.40
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.61
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.27
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.70

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.