Gene detail

Detailed information of OS493_005915-T1 in Lophelia pertusa

Genomic Location: scaffold_12:2358934...2365090
NR annotation: KAJ7339516.1, Tyrosine-protein kinase abl1 [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
P10447	Tyrosine-protein kinase transforming protein Abl OS=Feline sarcoma virus (strain Hardy-Zuckerman 2) OX=11776 GN=ABL PE=2 SV=1
P00519	Tyrosine-protein kinase ABL1 OS=Homo sapiens OX=9606 GN=ABL1 PE=1 SV=4
P00520	Tyrosine-protein kinase ABL1 OS=Mus musculus OX=10090 GN=Abl1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000422 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00017 all species →	SH2	SH2 domain	Domain	Interproscan
PF00018 all species →	SH3_1	SH3 domain	Domain	Interproscan
PF07714 all species →	PK_Tyr_Ser-Thr	Protein tyrosine and serine/threonine kinase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000980 all species →	Domain	SH2 domain	Interproscan
IPR000719 all species →	Domain	Protein kinase domain	Interproscan
IPR001452 all species →	Domain	SH3 domain	Interproscan
IPR036860 all species →	Homologous_superfamily	SH2 domain superfamily	Interproscan
IPR020635 all species →	Domain	Tyrosine-protein kinase, catalytic domain	Interproscan
IPR001245 all species →	Domain	Serine-threonine/tyrosine-protein kinase, catalytic domain	Interproscan
IPR017441 all species →	Binding_site	Protein kinase, ATP binding site	Interproscan
IPR011009 all species →	Homologous_superfamily	Protein kinase-like domain superfamily	Interproscan
IPR050198 all species →	Family	Non-receptor tyrosine kinases involved in cell signaling	Interproscan
IPR035837 all species →	Domain	Tyrosine-protein kinase ABL, SH2 domain	Interproscan
IPR008266 all species →	Active_site	Tyrosine-protein kinase, active site	Interproscan
IPR036028 all species →	Homologous_superfamily	SH3-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24418 all species →	TYROSINE-PROTEIN KINASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004672 all species →	Molecular Function	protein kinase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006468 all species →	Biological Process	protein phosphorylation	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0004713 all species →	Molecular Function	protein tyrosine kinase 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_005915-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_005915-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

28.3Max TPM

11.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.77	11.35
polyp at pH7 6	18	18	7.59	12.27
coral polyp · control treatment	16	16	16.24	27.39
coral polyp · oil and dispersant treatment	16	16	17.10	28.30
coral polyp · oil treatment	16	16	12.34	21.09
coral polyp · dispersant treatment	16	16	10.88	18.15
Polyp	10	9	3.16	5.66

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.35
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.88
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.68
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.63
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.92
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.39
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.71
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.25
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.73
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.50
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.06
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.68
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.62
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.57
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.09
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.70
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.54
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.62
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.73
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.73
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.51
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.34
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.25
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.81
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.56
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.49
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.22
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.15
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.99
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.70
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.36
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.06
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.69
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.71
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.97
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.39
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.87
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.29
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.68
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.53
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.52
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.96
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.78
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.09
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.37
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.59
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.49
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.42
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.06
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.65
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.17
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.30
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.24
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.09
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.93
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.46
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.98
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.71
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.78
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.34
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.27
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.59
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.14
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.92
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.79
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.71
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.38
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.09
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.75
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.97
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.67
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.04
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.93
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.48
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.27
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.51
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.08
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.99
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.65
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.81
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.54
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.52
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.20
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.15
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.12
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.57
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.24
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.66
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.19
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.07
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.79
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.19
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.64
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.10
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.64
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.88
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.03
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.13
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.70
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.66
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.24
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.03
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	4.12
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.36
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.57
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.44
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.96
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.21
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.