Gene detail

Detailed information of OS493_019425-T1 in Lophelia pertusa

Genomic Location: scaffold_67:1238812...1241680
NR annotation: KAJ7391293.1, Arfaptin-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
Q3ZCL5	Arfaptin-2 OS=Bos taurus OX=9913 GN=ARFIP2 PE=2 SV=1
P53365	Arfaptin-2 OS=Homo sapiens OX=9606 GN=ARFIP2 PE=1 SV=1
Q8K221	Arfaptin-2 OS=Mus musculus OX=10090 GN=Arfip2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003962 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06456 all species →	Arfaptin	Arfaptin-like domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR030798 all species →	Family	Arfaptin family	Interproscan
IPR010504 all species →	Domain	Arfaptin homology (AH) domain	Interproscan
IPR027267 all species →	Homologous_superfamily	AH/BAR domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12141 all species →	ARFAPTIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005543 all species →	Molecular Function	phospholipid binding	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0032588 all species →	Cellular Component	trans-Golgi network membrane	Interproscan
GO:0034315 all species →	Biological Process	regulation of Arp2/3 complex-mediated actin nucleation	Interproscan
GO:0019904 all species →	Molecular Function	protein domain specific 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
K20314	ARFIP; arfaptin	-	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_019425-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

107TPM > 0

7Conditions

11.1Max TPM

3.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	2.31	5.08
polyp at pH7 6	18	16	2.65	11.05
coral polyp · control treatment	16	16	4.76	8.89
coral polyp · oil and dispersant treatment	16	16	3.80	7.07
coral polyp · oil treatment	16	16	3.73	7.14
coral polyp · dispersant treatment	16	16	4.74	9.90
Polyp	10	9	1.38	4.01

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.08
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.43
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.64
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.59
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.49
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.33
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.31
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.30
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.21
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.67
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.38
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.32
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.27
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.09
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.99
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.70
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.46
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.32
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.05
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.29
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.82
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.61
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.50
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.46
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.05
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.56
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.38
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.96
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.50
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.30
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.01
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.81
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.74
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.66
SRR11359504	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
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.89
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.81
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.18
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.76
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.88
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.53
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.41
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.39
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.09
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.62
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.37
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.10
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.58
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.08
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.76
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.70
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.07
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.55
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.43
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.44
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.29
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.20
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.87
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.61
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.30
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.29
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.07
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.93
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.49
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.20
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.51
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.50
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.14
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.45
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.69
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.84
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.42
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.40
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.49
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.37
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.18
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.94
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.84
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.80
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.72
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.20
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.02
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.23
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.90
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.97
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.54
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.53
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.52
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.40
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.30
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.27
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.06
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.71
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.84
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.68
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.56
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.14
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.42
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.02
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.01
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.95
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.01
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.70
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.60
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.46
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.43
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.40
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.27
SRR7746667	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.