Gene detail

Detailed information of OS493_002858-T1 in Lophelia pertusa

Genomic Location: scaffold_6:1224225...1228448
NR annotation: KAJ7340132.1, ARF-binding protein [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
Q9UJY5	ADP-ribosylation factor-binding protein GGA1 OS=Homo sapiens OX=9606 GN=GGA1 PE=1 SV=1
Q8R0H9	ADP-ribosylation factor-binding protein GGA1 OS=Mus musculus OX=10090 GN=Gga1 PE=1 SV=1
Q8BMI3	ADP-ribosylation factor-binding protein GGA3 OS=Mus musculus OX=10090 GN=Gga3 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004829 (this species only)
Ubiquitin family	UBD\|Alpha-Helix\|GAT · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18308 all species →	GGA_N-GAT	N-terminal extension of GAT domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027422 all species →	Family	ADP-ribosylation factor-binding protein GGA1-3	Interproscan
IPR038425 all species →	Homologous_superfamily	GAT domain superfamily	Interproscan
IPR004152 all species →	Domain	GAT domain	Interproscan
IPR041198 all species →	Domain	N-terminal extension of GAT domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45905 all species →	GOLGI-LOCALIZED, GAMMA-ADAPTIN EAR CONTAINING, ARF BINDING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005802 all species →	Cellular Component	trans-Golgi network	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0006893 all species →	Biological Process	Golgi to plasma membrane transport	Interproscan
GO:0031267 all species →	Molecular Function	small GTPase binding	Interproscan
GO:0034394 all species →	Biological Process	protein localization to cell surface	Interproscan
GO:0035091 all species →	Molecular Function	phosphatidylinositol binding	Interproscan
GO:0043130 all species →	Molecular Function	ubiquitin 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_002858-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_002858-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

23.1Max TPM

7.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	14	4.12	9.41
polyp at pH7 6	18	16	5.06	8.20
coral polyp · control treatment	16	16	11.07	19.60
coral polyp · oil and dispersant treatment	16	16	10.35	23.13
coral polyp · oil treatment	16	16	8.36	17.16
coral polyp · dispersant treatment	16	15	6.16	10.29
Polyp	10	9	3.37	5.68

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.41
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.57
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.01
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.69
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.63
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.45
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.19
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.55
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.04
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.77
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.09
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.80
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.29
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.72
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	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
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.20
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.45
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.26
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.06
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.04
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.44
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.61
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.47
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.45
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.64
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.36
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.79
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.79
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.77
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.71
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.60
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.78
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.44
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.68
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.25
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.68
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.66
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.64
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.58
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.27
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.42
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.52
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.44
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.63
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.25
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.33
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.13
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.71
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.17
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.84
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.32
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.72
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.25
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.41
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.19
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.72
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.63
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.93
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.26
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.12
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.07
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.12
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.16
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.71
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.03
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.96
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.52
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.48
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.31
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.03
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.95
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.56
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.23
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.00
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.93
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.51
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.35
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.02
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.29
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.49
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.72
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.44
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.55
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.07
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.67
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.37
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.15
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.52
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.40
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.30
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.01
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.99
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.60
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.68
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.44
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.03
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.87
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.73
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.42
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.11
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.07
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.33
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.