Gene detail

Detailed information of OS493_024869-T1 in Lophelia pertusa

Genomic Location: scaffold_118:630134...633624
NR annotation: KAJ7371529.1, Tubulin polyglutamylase complex subunit 2 [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
Q6AXS8	Tubulin polyglutamylase complex subunit 2 OS=Rattus norvegicus OX=10116 GN=Tpgs2 PE=2 SV=2
Q66JT5	Tubulin polyglutamylase complex subunit 2 OS=Mus musculus OX=10090 GN=Tpgs2 PE=1 SV=2
Q68CL5	Tubulin polyglutamylase complex subunit 2 OS=Homo sapiens OX=9606 GN=TPGS2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006058 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09346 all species →	SMI1_KNR4	SMI1 / KNR4 family (SUKH-1)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR037883 all species →	Homologous_superfamily	Knr4/Smi1-like domain superfamily	Interproscan
IPR018958 all species →	Domain	Knr4/Smi1-like domain	Interproscan
IPR039231 all species →	Family	Tubulin polyglutamylase complex subunit 2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31854 all species →	TUBULIN POLYGLUTAMYLASE COMPLEX SUBUNIT 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0018095 all species →	Biological Process	protein polyglutamylation	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
K16605	TPGS2; tubulin polyglutamylase complex subunit 2	-	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_024869-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

105TPM > 0

7Conditions

11.7Max TPM

2.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.36	5.72
polyp at pH7 6	18	15	2.73	4.82
coral polyp · control treatment	16	16	3.46	11.75
coral polyp · oil and dispersant treatment	16	16	2.75	11.33
coral polyp · oil treatment	16	16	3.23	6.50
coral polyp · dispersant treatment	16	15	1.67	5.52
Polyp	10	9	2.81	4.00

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.72
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.06
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.94
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.47
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.35
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.54
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.23
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.19
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.16
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.00
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.99
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.66
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.65
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.53
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.51
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.38
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.17
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.93
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.82
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.61
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.05
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.67
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.36
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.32
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.12
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.04
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.98
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.93
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.85
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.78
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.63
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.55
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.48
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.75
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.53
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.46
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.61
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.51
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.40
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.19
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.09
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.98
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.70
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.48
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.11
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.84
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.76
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.56
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.39
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.33
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.25
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.61
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.47
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.07
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.65
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.61
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.07
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.01
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.71
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.70
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.54
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.46
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.17
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.70
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.61
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.50
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.25
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.49
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.26
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.99
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.60
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.49
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.19
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.18
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.77
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.29
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.19
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.94
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.76
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.64
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.13
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.52
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.80
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.15
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.71
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.97
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.81
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.42
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.34
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.21
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.91
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.83
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.81
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.76
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.32
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.15
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.73
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.45
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.40
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.91
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.55
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.44
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.84
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.