Gene detail

Detailed information of OS493_031366-T1 in Lophelia pertusa

Genomic Location: scaffold_215:450065...455979
NR annotation: KAJ7353919.1, Transforming growth factor beta-1-induced transcript 1 protein [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
P49024	Paxillin OS=Gallus gallus OX=9031 GN=PXN PE=1 SV=1
Q8VI36	Paxillin OS=Mus musculus OX=10090 GN=Pxn PE=1 SV=1
Q5R7I1	Paxillin OS=Pongo abelii OX=9601 GN=PXN PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004948 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00412 all species →	LIM	LIM domain	Domain	Interproscan
PF03535 all species →	Paxillin	Paxillin family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001781 all species →	Domain	Zinc finger, LIM-type	Interproscan
IPR047075 all species →	Domain	Paxillin/TGFB1I1, LIM domain 1	Interproscan
IPR001904 all species →	Domain	Paxillin, Lim domain 4	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24210 all species →	LIM DOMAIN-CONTAINING PROTEIN	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_031366-T1. This gene does have a gene model — the search simply returned no hit.

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
K05760	PXN; paxillin	-	Domain-containing proteins not elsewhere classified	ko04990	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_031366-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

91.9Max TPM

28.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	23.43	37.47
polyp at pH7 6	18	18	22.71	34.59
coral polyp · control treatment	16	16	34.00	54.63
coral polyp · oil and dispersant treatment	16	16	34.07	67.96
coral polyp · oil treatment	16	16	27.12	64.09
coral polyp · dispersant treatment	16	16	41.52	91.89
Polyp	10	10	10.07	18.84

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	-	37.47
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.62
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.79
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.88
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.63
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.68
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.41
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.81
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.50
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.52
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.38
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.27
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.07
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.61
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.61
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.51
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.54
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.36
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.59
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.31
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.93
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.48
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.09
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.76
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.28
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.22
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.47
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.30
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.38
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.79
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.47
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.20
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.04
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.51
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.50
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.45
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.63
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.34
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.01
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.70
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.14
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.65
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.62
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.49
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.52
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.46
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.35
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.44
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.39
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.74
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.04
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.52
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.96
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.72
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.18
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.72
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.51
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.99
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.79
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.80
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.19
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.45
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.68
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.03
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.74
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.09
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.91
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.39
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.09
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.52
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.67
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.41
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.60
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.54
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.69
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.64
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.61
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.61
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.34
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.50
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.15
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.97
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.59
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	91.89
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.62
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.47
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.98
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.40
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.52
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.24
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	40.06
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.81
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.39
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.43
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.89
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.02
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.87
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.29
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.45
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	18.84
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	13.21
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	13.01
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.64
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.43
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	9.20
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.36
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.06
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.96
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	5.99

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.