Gene detail

Detailed information of OS493_015593-T1 in Lophelia pertusa

Genomic Location: scaffold_47:736672...749346
NR annotation: KAJ7360492.1, Tubulin beta-2A 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
Q13885	Tubulin beta-2A chain OS=Homo sapiens OX=9606 GN=TUBB2A PE=1 SV=1
Q4R5B3	Tubulin beta-2A chain OS=Macaca fascicularis OX=9541 GN=TUBB2A PE=2 SV=1
Q7TMM9	Tubulin beta-2A chain OS=Mus musculus OX=10090 GN=Tubb2a PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000525 (this species only) · gene tree & orthology

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
IPR036525 all species →	Homologous_superfamily	Tubulin/FtsZ, GTPase domain superfamily	Interproscan
IPR000217 all species →	Family	Tubulin	Interproscan
IPR002453 all species →	Family	Beta tubulin	Interproscan
IPR013838 all species →	Binding_site	Beta tubulin, autoregulation binding site	Interproscan
IPR017975 all species →	Conserved_site	Tubulin, conserved site	Interproscan
IPR003008 all species →	Domain	Tubulin/FtsZ, GTPase domain	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_015593-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_015593-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

109TPM > 0

7Conditions

21.7Max TPM

5.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.83	10.45
polyp at pH7 6	18	18	3.91	8.52
coral polyp · control treatment	16	16	8.14	21.71
coral polyp · oil and dispersant treatment	16	15	2.64	11.05
coral polyp · oil treatment	16	16	5.22	12.86
coral polyp · dispersant treatment	16	16	4.29	11.08
Polyp	10	10	5.07	10.79

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.45
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.34
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.36
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.50
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.00
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.84
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.53
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.27
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.17
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.76
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.75
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.71
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.24
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.96
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.56
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.42
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.17
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.97
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.52
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.45
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.78
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.53
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.46
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.58
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.40
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.29
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.25
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.80
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.64
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.43
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.42
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.35
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.16
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.08
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.80
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.42
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.71
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.76
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.99
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.63
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.28
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.29
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.62
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.52
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.84
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.03
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.93
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.45
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.28
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.08
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.53
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.36
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.05
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.15
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.43
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.67
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.62
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.44
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.23
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.04
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.95
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.87
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.86
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.13
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.07
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.50
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.28
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.86
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.39
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.32
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.17
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.36
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.20
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.35
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.07
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.54
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.63
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.03
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.78
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.67
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.56
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.94
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.59
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.08
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.58
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.46
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.71
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.27
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.41
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.20
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.03
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.97
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.53
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.42
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.82
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.63
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.62
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.76
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.22
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.79
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	10.01
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.28
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.26
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.38
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.02
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2.64
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.59
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.06
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.66

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.