Gene detail

Detailed information of OS493_015597-T1 in Lophelia pertusa

Genomic Location: scaffold_47:770304...770774
NR annotation: KAJ7360496.1, Tubulin beta-4B chain [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0085498 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_015597-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR013838 all species →	Binding_site	Beta tubulin, autoregulation binding site	Interproscan
IPR036525 all species →	Homologous_superfamily	Tubulin/FtsZ, GTPase domain superfamily	Interproscan

PANTHER

No PANTHER signature was detected for OS493_015597-T1. This gene does have a gene model — the search simply returned no hit.

Gene Ontology

No Gene Ontology signature was detected for OS493_015597-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_015597-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_015597-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

110TPM > 0

7Conditions

996.5Max TPM

384.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	220.57	291.35
polyp at pH7 6	18	18	216.51	260.16
coral polyp · control treatment	16	16	518.27	755.49
coral polyp · oil and dispersant treatment	16	16	446.06	616.17
coral polyp · oil treatment	16	16	426.87	591.99
coral polyp · dispersant treatment	16	16	607.31	996.55
Polyp	10	10	239.31	494.68

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	291.35
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	269.17
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	262.49
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	256.08
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	247.06
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	229.47
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	222.31
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	219.00
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	215.52
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	207.06
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	201.91
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	200.76
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	200.65
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	199.31
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	198.90
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	192.76
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	183.94
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	172.59
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	260.16
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	252.74
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	246.70
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	241.06
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	234.79
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	231.52
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	224.70
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	223.70
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	222.91
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	218.56
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	208.95
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	204.53
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	201.31
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	195.97
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	194.01
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	192.43
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	175.66
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	167.53
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	755.49
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	746.68
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	675.19
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	656.87
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	641.76
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	603.33
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	548.45
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	521.46
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	492.90
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	443.46
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	422.91
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	399.31
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	389.02
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	378.50
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	319.24
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	297.71
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	616.17
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	606.13
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	526.59
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	508.83
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	475.43
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	463.68
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	453.38
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	436.34
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	433.93
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	411.57
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	404.69
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	390.84
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	388.37
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	384.89
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	377.51
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	258.64
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	591.99
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	559.52
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	534.19
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	528.10
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	487.44
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	483.40
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	465.56
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	401.82
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	381.62
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	369.58
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	368.92
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	356.60
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	338.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	332.48
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	331.33
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	298.79
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	996.55
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	950.86
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	790.67
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	757.39
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	725.05
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	711.25
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	701.69
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	683.32
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	631.68
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	613.98
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	561.94
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	477.83
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	459.82
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	333.77
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	162.17
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	158.91
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	494.68
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	327.56
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	280.78
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	258.20
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	258.19
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	196.17
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	163.22
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	150.80
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	150.69
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	112.83

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.