Gene detail

Detailed information of OS493_014737-T1 in Lophelia pertusa

Genomic Location: scaffold_42:1023846...1024319
NR annotation: KAJ7334423.1, hypothetical protein OS493_014737 [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
Q8WX92	Negative elongation factor B OS=Homo sapiens OX=9606 GN=NELFB PE=1 SV=1
Q8C4Y3	Negative elongation factor B OS=Mus musculus OX=10090 GN=Nelfb PE=1 SV=2
Q9Y113	Negative elongation factor B OS=Drosophila melanogaster OX=7227 GN=NELF-B PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007533 (this species only) · gene tree & orthology

Pfam domain

No Pfam domain signature was recorded for OS493_014737-T1 in Lophelia pertusa.

InterPro

InterPro term	Type	Description	Source
IPR010405 all species →	Family	Cofactor of BRCA1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13503 all species →	NEGATIVE ELONGATION FACTOR COMPLEX MEMBER B	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0032021 all species →	Cellular Component	NELF complex	Interproscan
GO:0034244 all species →	Biological Process	negative regulation of transcription elongation by RNA polymerase II	Interproscan
GO:0045892 all species →	Biological Process	negative regulation of DNA-templated transcription	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_014737-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_014737-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

127.6Max TPM

34.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	31.46	41.13
polyp at pH7 6	18	18	31.28	48.70
coral polyp · control treatment	16	16	43.50	99.18
coral polyp · oil and dispersant treatment	16	16	50.36	127.60
coral polyp · oil treatment	16	16	36.33	56.04
coral polyp · dispersant treatment	16	16	20.48	32.34
Polyp	10	10	21.32	36.94

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.13
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.47
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.91
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.75
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.56
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.42
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.09
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.90
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.91
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.84
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.16
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.85
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.21
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.77
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.97
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.67
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.22
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.46
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.70
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.87
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.90
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.95
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.40
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.21
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.77
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.35
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.87
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.04
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.06
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.08
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.66
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.57
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.93
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.61
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.45
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.57
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	99.18
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.69
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.64
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.19
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.14
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.42
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.12
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.85
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.40
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.89
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.55
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.22
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.51
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.79
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.06
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.30
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	127.60
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	64.69
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.04
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.57
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.17
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.49
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.56
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.65
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.21
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.29
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.40
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.25
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.23
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.74
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.91
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	56.04
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.23
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.70
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.55
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.07
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.76
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.86
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.39
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.08
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.17
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.42
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.65
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.87
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.62
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.74
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.07
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.34
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.32
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.50
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.27
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.20
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.87
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.43
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.83
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.29
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.77
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.41
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.86
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.55
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.43
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.71
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.87
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	36.94
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	34.77
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	28.88
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	23.80
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	19.49
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	17.54
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	17.45
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.76
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	14.43
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	5.13

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.