Gene detail

Detailed information of OS493_027835-T1 in Lophelia pertusa

Genomic Location: scaffold_154:585189...593348
NR annotation: KAJ7371146.1, Mitotic spindle assembly checkpoint protein MAD1 [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)	OG0005177 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_027835-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR008672 all species →	Family	Spindle assembly checkpoint component Mad1	Interproscan
IPR000727 all species →	Domain	Target SNARE coiled-coil homology domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23168 all species →	MITOTIC SPINDLE ASSEMBLY CHECKPOINT PROTEIN MAD1 MITOTIC ARREST DEFICIENT-LIKE PROTEIN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000776 all species →	Cellular Component	kinetochore	Interproscan
GO:0005635 all species →	Cellular Component	nuclear envelope	Interproscan
GO:0007094 all species →	Biological Process	mitotic spindle assembly checkpoint signaling	Interproscan
GO:0051315 all species →	Biological Process	attachment of mitotic spindle microtubules to kinetochore	Interproscan
GO:0072686 all species →	Cellular Component	mitotic spindle	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_027835-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_027835-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

103TPM > 0

7Conditions

8.4Max TPM

1.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	1.75	3.19
polyp at pH7 6	18	15	1.70	3.07
coral polyp · control treatment	16	16	1.92	5.31
coral polyp · oil and dispersant treatment	16	16	1.68	8.39
coral polyp · oil treatment	16	16	1.58	3.21
coral polyp · dispersant treatment	16	15	1.85	6.43
Polyp	10	8	0.73	1.47

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	-	3.19
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.98
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.90
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.83
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.57
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.34
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.17
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.78
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.77
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.67
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.34
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.34
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.19
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.05
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.97
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.77
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.61
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.07
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.88
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.83
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.79
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.53
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.25
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.24
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.03
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.71
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.65
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.56
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.53
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.42
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.37
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.68
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.31
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.64
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.52
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.23
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.20
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.00
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.94
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.92
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.88
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.68
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.42
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.05
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.03
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.92
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.69
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.24
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.39
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.21
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.17
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.90
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.67
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.61
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.41
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.21
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.15
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.10
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.80
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.75
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.73
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.70
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.57
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.46
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.21
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.80
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.33
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.25
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.69
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.66
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.60
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.50
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.38
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.35
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.31
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.16
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.07
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.98
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.51
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.49
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.43
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.81
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.50
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.32
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.11
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.01
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.97
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.86
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.86
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.78
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.38
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.12
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.89
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.25
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.23
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.47
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.04
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.04
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.93
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.91
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.73
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.65
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.55
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
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.