Gene detail

Detailed information of OS493_036494-T1 in Lophelia pertusa

Genomic Location: scaffold_367:32480...33588
NR annotation: KAJ7388641.1, Gamma-tubulin complex component 5 [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
Q96RT8	Gamma-tubulin complex component 5 OS=Homo sapiens OX=9606 GN=TUBGCP5 PE=1 SV=1
Q8BKN5	Gamma-tubulin complex component 5 OS=Mus musculus OX=10090 GN=Tubgcp5 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003391 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF20685 all species →	GCP5-Mod21_C	Gamma-Tubulin ring complex non-core subunit mod21, C-terminal	Domain	Interproscan

InterPro

No InterPro signature was detected for OS493_036494-T1. This gene does have a gene model — the search simply returned no hit.

PANTHER

No PANTHER signature was detected for OS493_036494-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

No Gene Ontology signature was detected for OS493_036494-T1. This gene does have a gene model — the search simply returned no hit.

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_036494-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_036494-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

100TPM > 0

7Conditions

29.1Max TPM

5.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	16	5.78	11.84
polyp at pH7 6	18	13	4.71	9.30
coral polyp · control treatment	16	16	7.70	29.14
coral polyp · oil and dispersant treatment	16	16	4.58	10.76
coral polyp · oil treatment	16	16	7.03	12.33
coral polyp · dispersant treatment	16	14	4.09	10.74
Polyp	10	9	4.95	10.96

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	-	11.84
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.83
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.53
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.36
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.19
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.18
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.10
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.81
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.66
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.63
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.35
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.03
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.55
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.93
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.02
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
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.30
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.16
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.88
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.61
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.31
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.29
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.85
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.76
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.42
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.09
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.79
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.21
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.04
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
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	29.14
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.26
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.10
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.93
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.72
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.21
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.18
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.56
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.36
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.24
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.95
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.76
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.65
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.64
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.34
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.23
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.76
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.40
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.51
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.83
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.62
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.41
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.58
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.25
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.04
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.54
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.37
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.93
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.57
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.81
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.41
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.26
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.33
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.33
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.42
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.64
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.13
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.92
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.81
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.70
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.30
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.14
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.94
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.81
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.76
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.86
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.32
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.16
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.74
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.55
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.81
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.72
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.24
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.12
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.94
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.72
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.38
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.20
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.94
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.80
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.64
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.63
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.96
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	8.12
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.83
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.65
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.35
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.12
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.49
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.94
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.