Gene detail

Detailed information of OS493_008905-T1 in Lophelia pertusa

Genomic Location: scaffold_21:1387945...1391006
NR annotation: KAJ7380447.1, MAD2 mitotic arrest deficient-like 1 [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
Q13257	Mitotic spindle assembly checkpoint protein MAD2A OS=Homo sapiens OX=9606 GN=MAD2L1 PE=1 SV=1
Q9Z1B5	Mitotic spindle assembly checkpoint protein MAD2A OS=Mus musculus OX=10090 GN=Mad2l1 PE=1 SV=2
Q556Y9	Mitotic spindle assembly checkpoint protein MAD2A OS=Dictyostelium discoideum OX=44689 GN=mad2l1-1 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007854 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02301 all species →	HORMA	HORMA domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003511 all species →	Domain	HORMA domain	Interproscan
IPR045091 all species →	Family	Mad2-like	Interproscan
IPR036570 all species →	Homologous_superfamily	HORMA domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11842 all species →	MITOTIC SPINDLE ASSEMBLY CHECKPOINT PROTEIN MAD2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000776 all species →	Cellular Component	kinetochore	Interproscan
GO:0005654 all species →	Cellular Component	nucleoplasm	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0007094 all species →	Biological Process	mitotic spindle assembly checkpoint signaling	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
K02537	MAD2; mitotic spindle assembly checkpoint protein MAD2	-	Chromosome and associated proteins	ko03036	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_008905-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

100TPM > 0

7Conditions

48.5Max TPM

3.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	3.49	6.33
polyp at pH7 6	18	15	2.79	6.02
coral polyp · control treatment	16	16	5.55	48.46
coral polyp · oil and dispersant treatment	16	15	2.76	20.08
coral polyp · oil treatment	16	16	2.84	8.37
coral polyp · dispersant treatment	16	15	1.42	5.26
Polyp	10	7	2.12	7.86

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.33
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.33
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.20
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.18
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.04
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.25
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.12
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.54
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.49
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.48
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.19
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.68
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.42
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.25
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.69
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.65
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.02
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.34
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.97
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.97
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.56
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.84
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.23
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.05
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.79
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.71
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.89
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.79
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.74
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.69
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.65
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	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	48.46
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.27
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.27
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.95
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.68
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.12
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.80
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.76
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.71
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.41
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.02
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.93
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.24
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.14
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.63
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.49
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.08
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.22
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.65
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.51
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.31
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.30
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.83
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.30
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.21
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.12
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.96
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.91
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.83
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.53
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.38
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.37
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.50
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.03
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.81
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.59
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.28
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.68
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.55
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.48
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.18
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.79
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.49
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.41
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.38
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.33
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.65
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.26
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.55
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.01
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.83
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.71
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.57
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.35
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.32
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.16
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.03
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.83
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.61
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.59
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.58
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.32
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.86
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.30
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.56
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	2.52
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.88
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.74
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.35
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	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.