Gene detail

Detailed information of OS493_023757-T1 in Lophelia pertusa

Genomic Location: scaffold_107:117239...122570
NR annotation: KAJ7357628.1, hypothetical protein OS493_023757 [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
Q9EQQ2	Protein YIPF5 OS=Mus musculus OX=10090 GN=Yipf5 PE=1 SV=1
Q5XID0	Protein YIPF5 OS=Rattus norvegicus OX=10116 GN=Yipf5 PE=2 SV=1
Q6P5I8	Protein YIPF5 OS=Danio rerio OX=7955 GN=yipf5 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003498 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04893 all species →	Yip1	Yip1 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006977 all species →	Domain	Yip1 domain	Interproscan
IPR045231 all species →	Family	Protein Yip1/4-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21236 all species →	GOLGI MEMBRANE PROTEIN YIP1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0005802 all species →	Cellular Component	trans-Golgi network	Interproscan
GO:0006888 all species →	Biological Process	endoplasmic reticulum to Golgi vesicle-mediated transport	Interproscan
GO:0048280 all species →	Biological Process	vesicle fusion with Golgi apparatus	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
K20363	YIPF5_7, YIP1; protein YIPF5/7	-	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_023757-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

24.9Max TPM

6.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	6.62	10.42
polyp at pH7 6	18	16	5.72	11.54
coral polyp · control treatment	16	16	7.98	24.89
coral polyp · oil and dispersant treatment	16	16	5.53	12.23
coral polyp · oil treatment	16	16	7.46	12.40
coral polyp · dispersant treatment	16	16	5.26	10.12
Polyp	10	10	8.28	13.93

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.42
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.73
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.04
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.48
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.39
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.09
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.85
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.81
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.71
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.58
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.49
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.29
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.19
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.52
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.93
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.72
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.99
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.54
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.97
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.15
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.69
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.33
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.58
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.27
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.16
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.15
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.00
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.91
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.55
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.39
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.34
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.25
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.65
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
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.89
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.54
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.92
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.81
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.55
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.50
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.17
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.91
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.67
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.49
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.05
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.55
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.94
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.20
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.95
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.55
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.23
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.81
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.44
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.68
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.31
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.99
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.65
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.33
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.01
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.46
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.35
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.59
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.25
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.91
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.89
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.65
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.40
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.66
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.52
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.74
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.06
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.96
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.44
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.33
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.48
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.25
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.18
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.18
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.28
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.94
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.35
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.64
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.12
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.60
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.08
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.39
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.55
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.96
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.91
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.64
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.98
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.72
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.50
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.16
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.81
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.39
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.35
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.05
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	13.93
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	12.42
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	11.88
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	11.63
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	11.58
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.91
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.38
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.88
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.20
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.96

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.