Gene detail

Detailed information of OS493_006694-T1 in Lophelia pertusa

Genomic Location: scaffold_14:1082449...1086891
NR annotation: KAJ7386686.1, Ras-associated and pleckstrin y domains-containing protein 1 [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
Q5ZL23	Amyloid beta A4 precursor protein-binding family B member 1-interacting protein OS=Gallus gallus OX=9031 GN=APBB1IP PE=2 SV=1
Q8R5A3	Amyloid beta A4 precursor protein-binding family B member 1-interacting protein OS=Mus musculus OX=10090 GN=Apbb1ip PE=1 SV=2
Q7Z5R6	Amyloid beta A4 precursor protein-binding family B member 1-interacting protein OS=Homo sapiens OX=9606 GN=APBB1IP PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003212 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_006694-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR039664 all species →	Family	GRB/APBB1IP	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR000159 all species →	Domain	Ras-associating domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11243 all species →	GROWTH FACTOR RECEPTOR-BOUND PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0007165 all species →	Biological Process	signal transduction	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_006694-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_006694-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

102TPM > 0

7Conditions

71.5Max TPM

11.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	14	5.56	17.50
polyp at pH7 6	18	17	6.79	14.60
coral polyp · control treatment	16	16	19.90	71.48
coral polyp · oil and dispersant treatment	16	16	12.06	34.76
coral polyp · oil treatment	16	16	13.94	47.35
coral polyp · dispersant treatment	16	15	15.98	42.35
Polyp	10	8	2.11	4.33

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	-	17.50
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.45
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.27
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.84
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.33
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.81
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.62
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.37
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.44
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.97
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.08
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.01
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.35
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.02
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.60
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.51
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.30
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.01
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.31
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.21
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.15
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.91
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.35
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.48
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.12
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.93
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.50
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.28
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.72
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.69
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.11
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.48
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.99
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.93
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.75
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.71
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.36
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.43
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.46
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.70
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.31
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.92
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.43
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.74
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.05
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.68
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.44
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.76
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.05
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.27
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.45
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.41
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.25
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.72
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.21
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.20
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.21
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.13
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.56
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.03
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.24
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.24
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.18
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.35
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.18
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.17
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.49
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.29
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.37
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.14
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.31
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.31
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.20
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.32
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.15
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.73
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.99
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.43
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.68
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.35
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.39
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.42
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.32
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.09
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.51
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.76
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.07
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.06
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.99
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.27
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.94
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.02
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.48
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.01
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.33
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.92
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.34
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.30
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.26
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.89
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.30
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.79
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
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.