Gene detail

Detailed information of OS493_009724-T1 in Lophelia pertusa

Genomic Location: scaffold_23:1985928...2000865
NR annotation: KAJ7363564.1, hypothetical protein OS493_009724 [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
Q5ZIN1	Nuclear migration protein nudC OS=Gallus gallus OX=9031 GN=NUDC PE=2 SV=1
O35685	Nuclear migration protein nudC OS=Mus musculus OX=10090 GN=Nudc PE=1 SV=1
Q63525	Nuclear migration protein nudC OS=Rattus norvegicus OX=10116 GN=Nudc PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001876 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04969 all species →	CS	CS domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008978 all species →	Homologous_superfamily	HSP20-like chaperone	Interproscan
IPR037898 all species →	Family	NudC family	Interproscan
IPR007052 all species →	Domain	CS domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12356 all species →	NUCLEAR MOVEMENT PROTEIN NUDC	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006457 all species →	Biological Process	protein folding	Interproscan
GO:0051082 all species →	Molecular Function	unfolded protein 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K25866	NUDC; nuclear migration protein NudC	-	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_009724-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

141.2Max TPM

56.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	55.28	88.60
polyp at pH7 6	18	18	58.35	77.34
coral polyp · control treatment	16	16	67.08	119.36
coral polyp · oil and dispersant treatment	16	16	47.67	141.20
coral polyp · oil treatment	16	16	59.09	80.27
coral polyp · dispersant treatment	16	16	42.27	76.46
Polyp	10	10	70.59	104.08

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	88.60
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	77.77
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	75.32
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	73.49
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	67.31
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	65.37
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.25
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.76
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.25
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.75
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.71
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.01
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.27
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.95
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.57
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.59
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.20
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.90
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	77.34
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	74.39
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	64.55
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.89
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	61.67
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.90
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.34
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	58.78
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.97
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.54
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.51
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.70
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.38
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.07
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.78
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.81
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.91
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.71
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	119.36
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	97.19
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	84.12
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.21
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.68
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.88
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.67
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.09
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.05
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.48
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.66
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.99
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.41
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.12
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.82
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.58
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	141.20
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.66
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.44
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.04
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.12
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.93
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.64
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.81
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.58
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.06
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.05
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.04
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.36
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.23
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.62
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.91
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	80.27
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.48
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	71.49
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.32
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.55
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.52
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.66
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	60.26
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.29
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.15
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.73
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.53
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.41
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.97
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.87
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.87
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	76.46
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.50
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.37
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.90
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.07
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.66
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.37
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.78
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.54
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.75
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.03
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.58
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.67
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.10
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.04
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.46
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	104.08
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	88.27
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	83.90
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	80.40
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	77.62
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	76.25
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	68.94
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	50.77
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	40.17
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	35.48

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.