Gene detail

Detailed information of OS493_015595-T1 in Lophelia pertusa

Genomic Location: scaffold_47:757449...761063
NR annotation: KAJ7360494.1, hypothetical protein OS493_015595 [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
P11833	Tubulin beta chain OS=Paracentrotus lividus OX=7656 PE=2 SV=1
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

Gene family

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

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03953 all species →	Tubulin_C	Tubulin C-terminal domain	Domain	Interproscan
PF00091 all species →	Tubulin	Tubulin/FtsZ family, GTPase domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR037103 all species →	Homologous_superfamily	Tubulin/FtsZ-like, C-terminal domain	Interproscan
IPR003008 all species →	Domain	Tubulin/FtsZ, GTPase domain	Interproscan
IPR002453 all species →	Family	Beta tubulin	Interproscan
IPR036525 all species →	Homologous_superfamily	Tubulin/FtsZ, GTPase domain superfamily	Interproscan
IPR017975 all species →	Conserved_site	Tubulin, conserved site	Interproscan
IPR018316 all species →	Domain	Tubulin/FtsZ, 2-layer sandwich domain	Interproscan
IPR000217 all species →	Family	Tubulin	Interproscan
IPR008280 all species →	Homologous_superfamily	Tubulin/FtsZ, C-terminal	Interproscan
IPR023123 all species →	Homologous_superfamily	Tubulin, C-terminal	Interproscan
IPR013838 all species →	Binding_site	Beta tubulin, autoregulation binding site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11588 all species →	TUBULIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0003924 all species →	Molecular Function	GTPase activity	Interproscan
GO:0005200 all species →	Molecular Function	structural constituent of cytoskeleton	Interproscan
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:0005737 all species →	Cellular Component	cytoplasm	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
K07375	TUBB; tubulin beta	-	Exosome	ko04147	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_015595-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

761.5Max TPM

461.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	492.09	600.91
polyp at pH7 6	18	18	482.13	589.95
coral polyp · control treatment	16	16	432.23	626.09
coral polyp · oil and dispersant treatment	16	16	418.51	569.08
coral polyp · oil treatment	16	16	396.79	517.03
coral polyp · dispersant treatment	16	16	507.12	761.46
Polyp	10	10	518.51	737.51

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	600.91
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	599.01
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	561.18
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	559.44
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	549.79
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	538.97
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	518.67
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	507.56
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	505.51
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	499.58
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	472.68
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	471.63
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	443.09
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	440.01
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	407.81
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	396.05
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	393.79
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	391.98
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	589.95
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	566.59
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	551.05
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	550.24
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	546.66
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	530.05
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	501.63
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	500.87
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	478.66
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	471.71
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	451.97
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	439.44
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	439.10
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	437.62
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	421.65
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	421.12
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	396.09
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	383.90
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	626.09
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	580.61
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	558.19
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	491.99
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	480.52
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	471.98
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	439.42
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	437.24
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	423.37
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	405.75
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	389.22
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	372.91
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	354.28
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	332.88
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	330.60
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	220.70
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	569.08
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	563.70
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	532.82
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	530.18
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	522.47
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	501.06
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	430.69
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	413.48
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	391.57
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	357.40
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	353.41
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	344.39
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	322.21
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	314.89
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	287.20
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	261.66
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	517.03
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	508.38
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	501.95
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	499.14
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	472.62
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	439.38
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	432.93
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	418.30
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	405.16
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	351.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	343.33
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	324.51
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	316.21
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	290.39
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	288.13
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	240.25
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	761.46
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	676.34
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	659.10
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	562.43
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	547.47
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	542.66
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	531.30
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	498.02
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	461.24
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	460.37
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	431.80
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	419.72
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	408.48
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	396.35
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	385.29
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	371.92
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	737.51
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	663.88
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	631.88
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	553.27
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	479.43
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	452.78
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	438.04
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	429.15
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	411.60
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	387.55

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.