Gene detail

Detailed information of OS493_002386-T1 in Lophelia pertusa

Genomic Location: scaffold_5:1395777...1401459
NR annotation: KAJ7365673.1, intraciliary transport [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
Q149C2	TRAF3-interacting protein 1 OS=Mus musculus OX=10090 GN=Traf3ip1 PE=1 SV=2
Q6PGZ3	TRAF3-interacting protein 1 OS=Danio rerio OX=7955 GN=traf3ip1 PE=2 SV=1
Q5XIN3	TRAF3-interacting protein 1 OS=Rattus norvegicus OX=10116 GN=Traf3ip1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005016 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17749 all species →	MIP-T3_C	Microtubule-binding protein MIP-T3 C-terminal region	Coiled-coil	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018799 all species →	Family	TRAF3-interacting protein 1	Interproscan
IPR041476 all species →	Domain	TRAF3-interacting protein 1, C-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31363 all species →	TRAF3-INTERACTING PROTEIN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005813 all species →	Cellular Component	centrosome	Interproscan
GO:0005930 all species →	Cellular Component	axoneme	Interproscan
GO:0008017 all species →	Molecular Function	microtubule binding	Interproscan
GO:0030992 all species →	Cellular Component	intraciliary transport particle B	Interproscan
GO:0036064 all species →	Cellular Component	ciliary basal body	Interproscan
GO:0042073 all species →	Biological Process	intraciliary transport	Interproscan
GO:0060271 all species →	Biological Process	cilium assembly	Interproscan
GO:0070507 all species →	Biological Process	regulation of microtubule cytoskeleton 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

No KEGG orthology assignment for OS493_002386-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_002386-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

113.9Max TPM

30.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	21.63	45.01
polyp at pH7 6	18	18	22.45	33.25
coral polyp · control treatment	16	16	35.97	78.50
coral polyp · oil and dispersant treatment	16	16	46.14	63.38
coral polyp · oil treatment	16	16	29.98	43.46
coral polyp · dispersant treatment	16	16	38.05	113.95
Polyp	10	10	17.05	26.75

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.01
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.77
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.38
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.14
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.78
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.44
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.28
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.45
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.57
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.77
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.68
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.48
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.20
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.41
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.34
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.16
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.59
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.90
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.25
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.88
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.42
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.21
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.05
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.71
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.01
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.58
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.25
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.86
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.31
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.20
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.13
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.63
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.51
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.82
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.24
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.06
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	78.50
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.94
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.88
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.48
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.08
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.87
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.33
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.03
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.27
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.76
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.75
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.67
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.55
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.88
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.85
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.74
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.38
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.18
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.88
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.08
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.10
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.74
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.26
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.16
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.02
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.82
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.63
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.13
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.44
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.58
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.45
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.49
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.46
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.22
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.21
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.58
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.20
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.66
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.36
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.28
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.97
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.48
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.39
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.82
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.58
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.10
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.73
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.69
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	113.95
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.21
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.67
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.47
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.26
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.52
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.94
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.04
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.17
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.25
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.03
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.15
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.01
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.16
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.95
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.10
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	26.75
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	24.97
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	22.86
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	21.20
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	19.81
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	14.07
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.70
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	10.12
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.64
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	9.41

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.