Gene detail

Detailed information of OS493_016206-T1 in Lophelia pertusa

Genomic Location: scaffold_49:1749035...1756837
NR annotation: KAJ7391910.1, Tubulin gamma-2 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
Q0VCD2	Tubulin gamma-1 chain OS=Bos taurus OX=9913 GN=TUBG1 PE=2 SV=1
P23258	Tubulin gamma-1 chain OS=Homo sapiens OX=9606 GN=TUBG1 PE=1 SV=2
Q32KM1	Tubulin gamma-2 chain OS=Bos taurus OX=9913 GN=TUBG2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007651 (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
IPR003008 all species →	Domain	Tubulin/FtsZ, GTPase domain	Interproscan
IPR000217 all species →	Family	Tubulin	Interproscan
IPR002454 all species →	Family	Gamma tubulin	Interproscan
IPR018316 all species →	Domain	Tubulin/FtsZ, 2-layer sandwich domain	Interproscan
IPR008280 all species →	Homologous_superfamily	Tubulin/FtsZ, C-terminal	Interproscan
IPR036525 all species →	Homologous_superfamily	Tubulin/FtsZ, GTPase domain superfamily	Interproscan
IPR023123 all species →	Homologous_superfamily	Tubulin, C-terminal	Interproscan
IPR037103 all species →	Homologous_superfamily	Tubulin/FtsZ-like, C-terminal domain	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:0000070 all species →	Biological Process	mitotic sister chromatid segregation	Interproscan
GO:0000212 all species →	Biological Process	meiotic spindle organization	Interproscan
GO:0000226 all species →	Biological Process	microtubule cytoskeleton organization	Interproscan
GO:0000278 all species →	Biological Process	mitotic cell cycle	Interproscan
GO:0000930 all species →	Cellular Component	gamma-tubulin complex	Interproscan
GO:0005200 all species →	Molecular Function	structural constituent of cytoskeleton	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005813 all species →	Cellular Component	centrosome	Interproscan
GO:0005819 all species →	Cellular Component	spindle	Interproscan
GO:0005874 all species →	Cellular Component	microtubule	Interproscan
GO:0007017 all species →	Biological Process	microtubule-based process	Interproscan
GO:0007020 all species →	Biological Process	microtubule nucleation	Interproscan
GO:0007052 all species →	Biological Process	mitotic spindle organization	Interproscan
GO:0031122 all species →	Biological Process	cytoplasmic microtubule organization	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
K10389	TUBG; tubulin gamma	-	Cytoskeleton proteins	ko04812	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_016206-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

57.2Max TPM

19.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	21.41	25.48
polyp at pH7 6	18	18	21.46	27.50
coral polyp · control treatment	16	16	22.48	57.16
coral polyp · oil and dispersant treatment	16	16	15.51	50.77
coral polyp · oil treatment	16	16	19.54	28.07
coral polyp · dispersant treatment	16	16	13.26	26.83
Polyp	10	10	22.62	29.51

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.48
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.72
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.51
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.30
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.17
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.56
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.06
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.66
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.53
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.46
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.15
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.15
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.95
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.65
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.26
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.46
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.16
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.15
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.50
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.98
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.41
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.64
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.63
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.03
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.89
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.85
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.77
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.99
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.25
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.07
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.45
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.19
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.14
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.25
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.12
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.14
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.16
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.96
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.20
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.08
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.58
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.50
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.30
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.95
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.99
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.73
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.81
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.46
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.83
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.04
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.04
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.77
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.03
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.49
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.88
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.97
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.11
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.07
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.33
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.09
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.84
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.58
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.46
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.18
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.13
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.16
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.08
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.07
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.54
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.31
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.28
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.45
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.57
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.40
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.80
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.84
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.85
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.67
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.73
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.46
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.03
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.96
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.72
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.83
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.01
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.19
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.45
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.06
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.08
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.77
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.96
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.89
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.70
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.42
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.29
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.89
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.52
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.20
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.89
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	29.51
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	29.19
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	27.70
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	27.16
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	26.21
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	23.30
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	18.61
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	18.55
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	13.32
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	12.63

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.