Gene detail

Detailed information of OS493_005230-T1 in Lophelia pertusa

Genomic Location: scaffold_10:4223657...4234083
NR annotation: KAJ7374877.1, hypothetical protein OS493_005230 [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
Q32P85	Dynein light chain roadblock-type 2 OS=Bos taurus OX=9913 GN=DYNLRB2 PE=3 SV=1
Q9DAJ5	Dynein light chain roadblock-type 2 OS=Mus musculus OX=10090 GN=Dynlrb2 PE=1 SV=1
Q8TF09	Dynein light chain roadblock-type 2 OS=Homo sapiens OX=9606 GN=DYNLRB2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001152 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03259 all species →	Robl_LC7	Roadblock/LC7 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004942 all species →	Domain	Roadblock/LAMTOR2 domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10779 all species →	DYNEIN LIGHT CHAIN ROADBLOCK	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005813 all species →	Cellular Component	centrosome	Interproscan
GO:0005868 all species →	Cellular Component	cytoplasmic dynein complex	Interproscan
GO:0007018 all species →	Biological Process	microtubule-based movement	Interproscan
GO:0045505 all species →	Molecular Function	dynein intermediate chain binding	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_005230-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_005230-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

110TPM > 0

7Conditions

342.5Max TPM

60.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	50.52	70.75
polyp at pH7 6	18	18	52.78	94.95
coral polyp · control treatment	16	16	77.21	342.48
coral polyp · oil and dispersant treatment	16	16	65.81	259.84
coral polyp · oil treatment	16	16	57.17	87.95
coral polyp · dispersant treatment	16	16	42.68	76.00
Polyp	10	10	89.53	132.76

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	70.75
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	65.88
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	65.03
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.30
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.77
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.34
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.77
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.72
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.14
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.19
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.59
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.00
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.91
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.73
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.40
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.45
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.00
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.30
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	94.95
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	77.40
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.58
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	68.85
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	64.71
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.31
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.17
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.18
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.73
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.41
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.16
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.54
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.89
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.02
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.96
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.55
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.80
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.89
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	342.48
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	80.22
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	75.23
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	73.05
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.31
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.57
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.09
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.27
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.94
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.86
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.98
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.05
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.71
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.60
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.27
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.67
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	259.84
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	70.50
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.31
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.90
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.06
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.76
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.06
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.32
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.21
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	57.96
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.24
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.34
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.56
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.37
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.34
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.16
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	87.95
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	75.38
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.27
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	66.88
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	66.87
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.26
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.95
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.70
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.63
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.45
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.44
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.33
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.16
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.42
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.71
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.28
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	76.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	74.43
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	54.98
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.97
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.65
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.26
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.18
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.97
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.85
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.81
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.67
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.35
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.03
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.10
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.41
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.31
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	132.76
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	111.77
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	108.09
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	100.13
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	89.10
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	86.40
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	78.23
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	74.11
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	61.70
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	53.03

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.