Gene detail

Detailed information of OS493_002897-T1 in Lophelia pertusa

Genomic Location: scaffold_6:1966741...1972180
NR annotation: KAJ7340168.1, kinase mkl2 MAPK-like protein [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
Q7YR76	Myocardin OS=Sus scrofa OX=9823 GN=MYOCD PE=2 SV=1
Q969V6	Myocardin-related transcription factor A OS=Homo sapiens OX=9606 GN=MRTFA PE=1 SV=1
Q8IZQ8	Myocardin OS=Homo sapiens OX=9606 GN=MYOCD PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004833 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02755 all species →	RPEL	RPEL repeat	Disordered	Interproscan
PF02037 all species →	SAP	SAP domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004018 all species →	Repeat	RPEL repeat	Interproscan
IPR003034 all species →	Domain	SAP domain	Interproscan
IPR036361 all species →	Homologous_superfamily	SAP domain superfamily	Interproscan
IPR043451 all species →	Family	Myocardin-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22793 all species →	MYOCARDIN-RELATED TRANSCRIPTION FACTOR-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003713 all species →	Molecular Function	transcription coactivator activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0045944 all species →	Biological Process	positive regulation of transcription by RNA polymerase II	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_002897-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_002897-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

68.4Max TPM

15.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.24	14.28
polyp at pH7 6	18	18	7.31	11.87
coral polyp · control treatment	16	16	14.25	34.77
coral polyp · oil and dispersant treatment	16	16	32.54	68.44
coral polyp · oil treatment	16	16	11.22	17.68
coral polyp · dispersant treatment	16	16	27.81	65.71
Polyp	10	9	2.64	6.05

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.28
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.18
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.23
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.88
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.77
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.50
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.29
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.40
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.19
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.10
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.96
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.91
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.25
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.20
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.05
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.99
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.29
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.92
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.87
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.08
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.78
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.70
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.68
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.59
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.56
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.24
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.66
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.53
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.72
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.71
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.69
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.02
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.71
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.27
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.25
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.53
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.77
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.92
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.51
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.89
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.59
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.26
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.18
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.66
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.35
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.40
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.78
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.69
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.31
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.88
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.07
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.70
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	68.44
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.22
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.20
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.55
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.02
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.89
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.38
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.45
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.75
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.39
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.63
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.92
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.65
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.37
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.84
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.87
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.68
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.36
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.99
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.75
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.10
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.03
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.63
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.01
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.48
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.77
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.47
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.12
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.23
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.11
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.50
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.34
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.71
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.09
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.00
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.52
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.72
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.40
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.94
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.89
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.04
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.96
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.33
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.36
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.20
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.17
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.35
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.35
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.05
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.72
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.05
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.85
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.98
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.65
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.18
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.96
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.