Gene detail

Detailed information of OS493_013018-T1 in Lophelia pertusa

Genomic Location: scaffold_34:2384983...2399507
NR annotation: KAJ7373425.1, positive regulation of cytoskeleton organization [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
Q9H079	KATNB1-like protein 1 OS=Homo sapiens OX=9606 GN=KATNBL1 PE=1 SV=1
Q9CWJ3	KATNB1-like protein 1 OS=Mus musculus OX=10090 GN=Katnbl1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008561 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13925 all species →	Katanin_con80	con80 domain of Katanin	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR028021 all species →	Domain	Katanin p80 subunit, C-terminal	Interproscan
IPR042404 all species →	Family	KATNB1-like protein 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14682 all species →	KATNB1-LIKE PROTEIN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008017 all species →	Molecular Function	microtubule binding	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	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_013018-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_013018-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

22.8Max TPM

8.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.99	12.68
polyp at pH7 6	18	18	9.67	14.34
coral polyp · control treatment	16	16	10.39	22.78
coral polyp · oil and dispersant treatment	16	16	7.45	15.68
coral polyp · oil treatment	16	16	8.73	15.40
coral polyp · dispersant treatment	16	16	7.24	16.25
Polyp	10	9	9.30	21.77

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	-	12.68
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.42
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.68
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.09
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.86
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.84
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.81
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.74
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.39
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.32
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.30
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.10
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.75
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.74
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.25
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.64
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.10
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.06
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.34
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.46
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.99
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.27
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.74
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.59
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.21
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.68
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.44
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.56
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.33
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.99
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.97
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.90
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.79
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.44
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.35
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.10
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.78
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.74
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.36
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.04
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.84
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.65
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.72
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.17
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.08
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.12
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.29
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.69
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.31
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.31
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.02
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.06
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.68
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.04
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.23
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.11
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.95
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.29
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.55
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.60
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.26
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.84
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.47
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.05
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.03
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.04
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.36
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.76
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.40
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.59
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.90
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.83
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.99
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.33
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.94
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.78
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.76
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.11
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.69
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.97
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.82
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.57
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.22
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.79
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.25
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.91
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.07
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.57
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.85
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.73
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.88
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.17
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.58
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.03
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.27
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.10
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.80
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.72
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.76
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.12
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	21.77
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	20.68
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	15.76
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9.87
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.06
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.38
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.09
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.89
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.50
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.