Gene detail

Detailed information of OS493_038681-T1 in Lophelia pertusa

Genomic Location: scaffold_674:31058...31982
NR annotation: KAJ7381850.1, 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)

UniProt accession	Description
Q3MHM5	Tubulin beta-4B chain OS=Bos taurus OX=9913 GN=TUBB4B PE=1 SV=1
P68371	Tubulin beta-4B chain OS=Homo sapiens OX=9606 GN=TUBB4B PE=1 SV=1
P68372	Tubulin beta-4B chain OS=Mus musculus OX=10090 GN=Tubb4b PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000512 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00091 all species →	Tubulin	Tubulin/FtsZ family, GTPase domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000217 all species →	Family	Tubulin	Interproscan
IPR002453 all species →	Family	Beta tubulin	Interproscan
IPR036525 all species →	Homologous_superfamily	Tubulin/FtsZ, GTPase domain superfamily	Interproscan
IPR013838 all species →	Binding_site	Beta tubulin, autoregulation binding site	Interproscan
IPR003008 all species →	Domain	Tubulin/FtsZ, GTPase domain	Interproscan
IPR017975 all species →	Conserved_site	Tubulin, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11588 all species →	TUBULIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005874 all species →	Cellular Component	microtubule	Interproscan
GO:0007017 all species →	Biological Process	microtubule-based process	Interproscan
GO:0000226 all species →	Biological Process	microtubule cytoskeleton organization	Interproscan
GO:0000278 all species →	Biological Process	mitotic cell cycle	Interproscan
GO:0005200 all species →	Molecular Function	structural constituent of cytoskeleton	Interproscan
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0003924 all species →	Molecular Function	GTPase activity	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_038681-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_038681-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

780.4Max TPM

20.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.85	14.01
polyp at pH7 6	18	18	5.33	10.18
coral polyp · control treatment	16	16	54.59	780.39
coral polyp · oil and dispersant treatment	16	16	48.96	570.04
coral polyp · oil treatment	16	16	5.09	14.12
coral polyp · dispersant treatment	16	16	8.27	44.71
Polyp	10	10	10.43	21.90

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.01
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.97
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.33
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.20
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.11
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.17
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.43
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.35
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.25
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.03
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.60
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.06
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.26
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.00
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.07
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.02
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.85
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.67
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.18
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.38
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.60
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.81
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.17
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.81
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.74
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.49
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.12
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.66
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.63
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.60
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.32
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.31
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.17
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.48
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.36
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.18
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	780.39
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.55
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.57
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.22
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.84
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.17
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.31
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.57
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.33
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.68
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.75
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.23
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.17
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.06
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.36
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.20
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	570.04
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.27
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.40
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.50
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.83
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.83
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.35
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.98
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.80
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.17
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.57
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.81
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.95
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.86
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.18
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.86
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.12
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.51
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.18
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.47
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.17
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.11
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.69
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.87
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.52
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.64
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.11
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.92
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.64
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.59
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.27
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.65
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.71
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.38
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.50
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.13
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.32
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.13
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.65
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.81
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.97
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.41
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.94
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.63
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.44
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.76
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.48
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	21.90
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	19.12
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	15.65
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.16
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	9.47
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.86
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.45
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.48
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.77
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.44

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.