Gene detail

Detailed information of OS493_029821-T1 in Lophelia pertusa

Genomic Location: scaffold_185:160379...166031
NR annotation: KAJ7354815.1, hypothetical protein OS493_029821 [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
P49757	Protein numb homolog OS=Homo sapiens OX=9606 GN=NUMB PE=1 SV=2
Q2LC84	Protein numb homolog OS=Rattus norvegicus OX=10116 GN=Numb PE=1 SV=2
Q9QZS3	Protein numb homolog OS=Mus musculus OX=10090 GN=Numb PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007578 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00640 all species →	PID	Phosphotyrosine interaction domain (PTB/PID)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR006020 all species →	Domain	PTB/PI domain	Interproscan
IPR016698 all species →	Family	Numb/numb-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR47368 all species →	NUMB	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	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
K06057	NUMBL; numb	-	Membrane trafficking	ko04131	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_029821-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

121.3Max TPM

30.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	16.90	27.55
polyp at pH7 6	18	18	15.95	29.76
coral polyp · control treatment	16	16	34.06	60.89
coral polyp · oil and dispersant treatment	16	16	48.21	82.62
coral polyp · oil treatment	16	16	30.00	48.56
coral polyp · dispersant treatment	16	16	54.10	121.32
Polyp	10	10	9.79	19.44

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.55
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.66
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.81
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.40
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.85
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.53
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.58
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.59
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.62
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.40
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.95
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.29
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.09
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.06
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.53
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.84
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.48
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.95
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.76
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.17
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.31
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.40
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.77
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.68
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.04
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.35
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.14
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.81
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.67
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.49
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.04
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.38
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.30
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.30
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.01
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.53
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.89
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	52.57
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.85
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.28
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.27
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.16
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.17
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.30
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.75
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.56
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.79
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.34
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.03
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.21
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.71
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.05
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	82.62
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.32
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.26
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.04
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.83
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.69
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.61
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.73
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.45
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.33
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.63
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.88
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.19
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.77
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.03
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.00
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.56
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.16
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.43
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.12
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.85
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.45
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.59
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.42
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.12
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.19
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.46
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.60
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.32
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.46
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	121.32
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	91.65
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.53
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.14
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.23
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.06
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.45
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.19
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.16
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.88
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.58
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.51
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.94
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.83
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.85
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.27
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	19.44
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	16.00
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	10.79
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	9.45
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.95
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.14
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	7.96
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.38
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.46
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	5.38

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.