Gene detail

Detailed information of OS493_005896-T1 in Lophelia pertusa

Genomic Location: scaffold_12:2232705...2237386
NR annotation: KAJ7339498.1, CDK5 regulatory subunit associated protein 2 [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
Q19UN5	CDK5 regulatory subunit-associated protein 2 OS=Pan troglodytes OX=9598 GN=CDK5RAP2 PE=2 SV=1
Q96SN8	CDK5 regulatory subunit-associated protein 2 OS=Homo sapiens OX=9606 GN=CDK5RAP2 PE=1 SV=5
Q9JLH5	CDK5 regulatory subunit-associated protein 2 OS=Rattus norvegicus OX=10116 GN=Cdk5rap2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001978 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07989 all species →	Cnn_1N	Centrosomin N-terminal motif 1	Coiled-coil	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR042791 all species →	Family	CDK5 regulatory subunit-associated protein 2	Interproscan
IPR012943 all species →	Domain	Centrosomin, N-terminal motif 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46930 all species →	CDK5 REGULATORY SUBUNIT-ASSOCIATED PROTEIN 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000132 all species →	Biological Process	establishment of mitotic spindle orientation	Interproscan
GO:0000226 all species →	Biological Process	microtubule cytoskeleton organization	Interproscan
GO:0000242 all species →	Cellular Component	pericentriolar material	Interproscan
GO:0000976 all species →	Molecular Function	transcription cis-regulatory region binding	Interproscan
GO:0001578 all species →	Biological Process	microtubule bundle formation	Interproscan
GO:0005516 all species →	Molecular Function	calmodulin binding	Interproscan
GO:0007059 all species →	Biological Process	chromosome segregation	Interproscan
GO:0007099 all species →	Biological Process	centriole replication	Interproscan
GO:0008017 all species →	Molecular Function	microtubule binding	Interproscan
GO:0019901 all species →	Molecular Function	protein kinase binding	Interproscan
GO:0031116 all species →	Biological Process	positive regulation of microtubule polymerization	Interproscan
GO:0035371 all species →	Cellular Component	microtubule plus-end	Interproscan
GO:0043015 all species →	Molecular Function	gamma-tubulin binding	Interproscan
GO:0045893 all species →	Biological Process	positive regulation of DNA-templated transcription	Interproscan
GO:0046600 all species →	Biological Process	negative regulation of centriole replication	Interproscan
GO:0048471 all species →	Cellular Component	perinuclear region of cytoplasm	Interproscan
GO:0090266 all species →	Biological Process	regulation of mitotic cell cycle spindle assembly checkpoint	Interproscan
GO:0097431 all species →	Cellular Component	mitotic spindle pole	Interproscan
GO:0005815 all species →	Cellular Component	microtubule organizing center	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_005896-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_005896-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

82TPM > 0

7Conditions

11.2Max TPM

2.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	13	1.39	3.15
polyp at pH7 6	18	14	1.92	6.34
coral polyp · control treatment	16	11	4.71	10.44
coral polyp · oil and dispersant treatment	16	13	3.69	11.20
coral polyp · oil treatment	16	12	2.43	6.25
coral polyp · dispersant treatment	16	12	3.79	8.76
Polyp	10	7	0.57	2.10

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	-	3.15
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.75
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.46
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.38
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.05
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.02
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.67
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.60
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.47
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.92
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.54
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.34
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.28
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.07
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.91
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.36
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.31
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.10
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.01
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.90
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.81
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.68
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.16
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.88
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.70
SRR11359512	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
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.44
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.76
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.40
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.14
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.87
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.31
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.72
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.52
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.16
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.15
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.81
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.20
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.26
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.01
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.86
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.43
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.42
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.39
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.05
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.63
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.85
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.39
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.78
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.72
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.25
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.03
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.23
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.09
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.99
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.43
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.81
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.52
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.35
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.07
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.69
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.46
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.76
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.29
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.08
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.02
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.36
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.85
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.73
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.99
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.78
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.75
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.45
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.62
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.10
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.18
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.67
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.60
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.58
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.40
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.21
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.