Gene detail

Detailed information of CAB4004819.1 in Paramuricea clavata

Genomic Location: pcla8_s005110:3470...6445
NR annotation: CAB4004819.1, toll-like [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

PACLA_8A058163

ATGTTGTGTCGTGTCATTTGGCTTGTACTTTCCGTGTCTAATTTGGCAAATTCGTTAGCAGACAGCTGTTCAAACAATCGCAAGGGCACTACAAATAAATGCCATGTTACATACAAACACGGGCCAACGCAAGGGACGCCTTTATTTAAAGTTGGCGAAAAAACTTTTGTTGACACGCGAATATTTTTTTTGGTAGTATCATCGGAGAATCCCAGAGAAGAGTGTTCGTTGAATTTGAATGTTGGGGACATTTTAAAAAGGTCAGTACAAAAATCCGAACAATCTAGTGTAGCAGTACATCAAATCGGTTGTGTATGCCAGAGCCCGGCAAGGGTGTCTTTCTGCCGAGCGGAGAATTTTACCGCGAATGATGTCATTTTATATCTTACTATCTTCCGTCATTGCCGTGTGACCGGCGCAGATCTGGCAGTCTGGGGACGAGCTGCGGACTTGCGGGTCTTGTATTTAATGGATGACGTCATTCTACAAGACAACGGCGAAACGGAGGCTGATTTACAAGGATTATTTAATATCGGGACATTGACTTTACACAATTTGAAAAACAAGACAATACCCCGTATGTTTTTGTCCTATAATTGGGAAAAAATGGCCGAAATTCAGTTGAGTAAAATGCGGTTAGGATCAACTGTGAATATTTTGAAAACAACAATGCCGTATTTACAGTCACTTGAATTATCTGGAAACGACCTAAGGGCCCTACCAGATTTCCCATGGTGCAACAGGAGCTTGAAACTGCCGAGAAATTTGTCCCGTACTTTCATTATGAACGCGCATTATTCGGAAGGGGCGACAATAAATCCGCGTATATATCGTCGCTTTTACGTTGTTCACTTTAATCCCGGAATAGACGACTTCAAAATTCCTTCTGGTAGTTTAGATAAGATTTCGATACGTGGCGACAATCTGAAGTCTATTGAATCGACGATGTTTCACGGAATAACGGGTTTAAAAGTTATCGATTTAAGCTTGAACAAACTAAGCCATATTCCTGAGCGCATTTTCGAAAAAACACCCGATATCGTCTCGGTAAACTTTGCAAATAACAATCTCACTTGGTTGGATGGGAAAACTTTTGAGAACTTGACAAATCTTCGAAAATTGGATGCCGGGCACAACTATATTCACACGATACAAAATGGTTTTCTGTCGGACAAACTGGTGAACTTAGAAGCGATTGATTTTGAAAATAATCTGTTGCGCGTTATCGAAGCGCGCGCTTTTCCACGTAGCGTGTTTAACGCGTTGAAGAAAATTAATTTCCGCAAGAATAAATTTCGCGAAGTGCCGCAGTTTGGTTTCTACGTTCGAAATCTGGAGACTTACGACATTTCTGAAAACGGGATAGACTTTGCGGGCTTTGTGAAAACAGTTGATGCAGTTTTTATGCCCGACTTTTTATACGTTCACACCGATTCAGAAAGTTCTATCGATACGCGATCTCCGTATGAATCATCAATAAATTTTCGAAATAAAAAAATTCTCAATCTCGAACGCAACGCCATTGAACGTTTCGACTTGACGGAATTCAATAAAACAAGATTGATAACACTCGAGTTCATTTTAAAAGTTTTTACGATAAGTTTAACGGGAAACCCACTTCATTGTGATTGCAAGACGCGTGAATTGCAAATAAAGCTTTTAAATTGGACAAAAGGAAACACTGAGATCACTGAGAAGGATTTTGAAAGTTGGGTATGTCACACACCACCGGAATTACGTGGAATGAAAATTTTAAACGTCCCATCGAAAGACTTAAGATGCGAAAGGCGTTGCGGTAAATGCCCCAAACGTTGTACTTGCTACCGAAGCGATTCCGACTCTGTGACGCTCGTAGACTGTCGGAGACGAAACCTGACGATGCTACCCAGCATACTTCCAAACGGTATGGTTGAATTACGTTTGGAATACAACCAAATCGAAAACTTAACTTTTTCAAAAAACACGGAAAACGTTACCTCGCTTTATGCAAGTCATAACAAGCTACAACGCGTTTCCCTTACTTTAAAGCATTTCCCTTCGAAATTAAACGAAATCTATTTGGATTCAAACAAGCTAACAACACTCCCCAACGGTTTTCGAAATTTCACTCTATCGAGGATAAACTTACAGAATAACTTTTTCACGTGCGGCTGTGAGAATCGCTGGATGAAAAGTTGGTTGAAACAGCAAAGCAAAGCGTTTGTCGGCGGTGCGGAAAGTGTGGCTTGTAGCTCGGGTGGTATGAATCAAGCAAAACCGTTAGTTTCTGTCAAAGATACGGATTTTGTTTGCACAGAAACAGTCAAACCAAACGGCTATAATGTTAATGAGATCAAAGCCATCTCTGCTTACGTTTTGGCGGGATTTCTATTCACGCTTCTCGTAATGGTTGCATTAATTTATCGATTTCGTAAAGAACTTAAACTTGTATTGTACACTCGTTTTGATTGGCACCCGTTTGATCGTGTCGACGATTCCGACCCATCGAAAGTCTACGACGCGTTTGTGTCATTCAACATGCGCGACAAACAATGGGTGATGGACACTCTGCAGAATAAACTCGAAAATCATCATCCATCGTATAAATTATGCATCCACTACCGAGACTTTATCCCGGGGGCACCAATCGCCGAGACTATCCTGGAGAGTGTCAAGAAAAGCCGGCGTATGATAATGGTTTTGTCGCGAAATTTTATTCAAAGCGAATGGTGTATGTTGGAATTCCGGGCGGCGCATCGCAGGGTTTTAAAAGGTCGCACGAACTATCTCATAATCGTACTTTTTGACGACGTGAATGTCGACAGCTTGGACGATGAGTTGAAGTTGTATTTGAAGACCAACACGTATCTCAGTGTTCAGAGCAAATGGTTCTGGCAACAATTGAAGTACGCGCTACCACAAAAGAAACAGGAAACGAGTGATGGTTTCCTAGGCAACCAGGCACTCGACTCTGATGAAAAATACATTCAGGCATAA

Transcript

rna-PACLA_8A058163

ATGTTGTGTCGTGTCATTTGGCTTGTACTTTCCGTGTCTAATTTGGCAAATTCGTTAGCAGACAGCTGTTCAAACAATCGCAAGGGCACTACAAATAAATGCCATGTTACATACAAACACGGGCCAACGCAAGGGACGCCTTTATTTAAAGTTGGCGAAAAAACTTTTGTTGACACGCGAATATTTTTTTTGGTAGTATCATCGGAGAATCCCAGAGAAGAGTGTTCGTTGAATTTGAATGTTGGGGACATTTTAAAAAGGTCAGTACAAAAATCCGAACAATCTAGTGTAGCAGTACATCAAATCGGTTGTGTATGCCAGAGCCCGGCAAGGGTGTCTTTCTGCCGAGCGGAGAATTTTACCGCGAATGATGTCATTTTATATCTTACTATCTTCCGTCATTGCCGTGTGACCGGCGCAGATCTGGCAGTCTGGGGACGAGCTGCGGACTTGCGGGTCTTGTATTTAATGGATGACGTCATTCTACAAGACAACGGCGAAACGGAGGCTGATTTACAAGGATTATTTAATATCGGGACATTGACTTTACACAATTTGAAAAACAAGACAATACCCCGTATGTTTTTGTCCTATAATTGGGAAAAAATGGCCGAAATTCAGTTGAGTAAAATGCGGTTAGGATCAACtgtgaatattttgaaaacaacaATGCCGTATTTACAGTCACTTGAATTATCTGGAAACGACCTAAGGGCCCTACCAGATTTCCCATGGTGCAACAGGAGCTTGAAACTGCCGAGAAATTTGTCCCGTACTTTCATTATGAACGCGCATTATTCGGAAGGGGCGACAATAAATCCGCGTATATATCGTCGCTTTTACGTTGTTCACTTTAATCCCGGAATAGACGACTTCAAAATTCCTTCTGGTAGTTTAGATAAGATTTCGATACGTGGCGACAATCTGAAGTCTATTGAATCGACGATGTTTCACGGAATAACGGGTTTAAAAGTTATCGATTTAAGCTTGAACAAACTAAGCCATATTCCTGAGCGCATTTTCGAAAAAACACCCGATATCGTCTCGGTAAACTTTGCAAATAACAATCTCACTTGGTTGGATGGGAAAACTTTTGAGAACTTGACAAATCTTCGAAAATTGGATGCCGGGCACAACTATATTCACACGATACAAAATGGTTTTCTGTCGGACAAACTGGTGAACTTAGAAGCGattgattttgaaaataatcTGTTGCGCGTTATCGAAGCGCGCGCTTTTCCACGTAGCGTGTTTAACGcgttgaagaaaattaatttccGCAAGAATAAATTTCGCGAAGTGCCGCAGTTTGGTTTCTACGTTCGAAATCTGGAGACTTACGACATTTCTGAAAACGGGATAGACTTTGCGGGCTTTGTGAAAACAGTTGATGCAGTTTTTATGCCCGACTTTTTATACGTTCACACCGATTCAGAAAGTTCTATCGATACGCGATCTCCGTATGAATCATCAATAAATTttcgaaataaaaaaattctcaatcTCGAACGCAACGCCATTGAACGTTTCGACTTGACGGAATTCAATAAAACAAGATTGATAACACTCGAgttcattttaaaagtttttacgATAAGTTTAACGGGAAACCCACTTCATTGTGATTGCAAGACGCGTGAATTGcaaataaagcttttaaattgGACAAAAGGAAACACTGAGATCACTGAGAAGGATTTTGAAAGTTGGGTATGTCACACACCACCGGAATTACGTggaatgaaaattttaaacgtCCCATCGAAAGACTTAAGATGCGAAAGGCGTTGCGGTAAATGCCCCAAACGTTGTACTTGCTACCGAAGCGATTCCGACTCTGTGACGCTCGTAGACTGTCGGAGACGAAACCTGACGATGCTACCCAGCATACTTCCAAACGGTATGGTTGAATTACGTTTGGAATACAACCAAATCGAAAACTTAACTTTTTCAAAAAACACGGAAAACGTTACCTCGCTTTATGCAAGTCATAACAAGCTACAACGCGTTTCCCTTACTTTAAAGCATTTCCCTTCGAAATTAAACGAAATCTATTTGGATTCAAACAAGCTAACAACACTCCCCAACGGTTTTCGAAATTTCACTCTATCGAGGATAAACTTACAGAATAACTTTTTCACGTGCGGCTGTGAGAATCGCTGGATGAAAAGTTGGTTGAAACAGCAAAGCAAAGCGTTTGTCGGCGGTGCGGAAAGTGTGGCTTGTAGCTCGGGTGGTATGAATCAAGCAAAACCGTTAGTTTCTGTCAAAGATACGGATTTTGTTTGCACAGAAACAGTCAAACCAAACGGCTATAATGTTAATGAGATCAAAGCCATCTCTGCTTACGTTTTGGCGGGATTTCTATTCACGCTTCTCGTAATGGTTGCATTAATTTATCGATTTCGTAAAGAACTTAAACTTGTATTGTACACTCGTTTTGATTGGCACCCGTTTGATCGTGTCGACGATTCCGACCCATCGAAAGTCTACGACGCGTTTGTGTCATTCAACATGCGCGACAAACAATGGGTGATGGACACTCTGCAGAATAAACTCGAAAATCATCATCCATCGTATAAATTATGCATCCACTACCGAGACTTTATCCCGGGGGCACCAATCGCCGAGACTATCCTGGAGAGTGTCAAGAAAAGCCGGCGtatgataatggttttgtcgCGAAATTTTATTCAAAGCGAATGGTGTATGTTGGAATTCCGGGCGGCGCATCGCAGGGTTTTAAAAGGTCGCACGAACTATCTCATAATCGTACTTTTTGACGACGTGAATGTCGACAGCTTGGACGATGAGTTGAAGTTGTATTTGAAGACCAACACGTATCTCAGTGTTCAGAGCAAATGGTTCTGGCAACAATTGAAGTACGCGCTACCACAAAAGAAACAGGAAACGAGTGATGGTTTCCTAGGCAACCAGGCACTCGACTCTGATGAAAAATACATTCAGGCATAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P08953	Protein toll OS=Drosophila melanogaster OX=7227 GN=Tl PE=1 SV=1
Q9V477	Toll-like receptor Tollo OS=Drosophila melanogaster OX=7227 GN=Tollo PE=1 SV=1
Q8SPE9	Toll-like receptor 4 OS=Pongo pygmaeus OX=9600 GN=TLR4 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002891 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01582 all species →	TIR	TIR domain	Family	Interproscan
PF13306 all species →	LRR_5	BspA type Leucine rich repeat region (6 copies)	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR032675 all species →	Homologous_superfamily	Leucine-rich repeat domain superfamily	Interproscan
IPR017241 all species →	Family	Toll-like receptor	Interproscan
IPR000157 all species →	Domain	Toll/interleukin-1 receptor homology (TIR) domain	Interproscan
IPR000372 all species →	Domain	Leucine-rich repeat N-terminal domain	Interproscan
IPR026906 all species →	Repeat	BspA-type LRR region	Interproscan
IPR000483 all species →	Domain	Cysteine-rich flanking region, C-terminal	Interproscan
IPR003591 all species →	Repeat	Leucine-rich repeat, typical subtype	Interproscan
IPR035897 all species →	Homologous_superfamily	Toll/interleukin-1 receptor homology (TIR) domain superfamily	Interproscan
IPR001611 all species →	Repeat	Leucine-rich repeat	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24365 all species →	TOLL-LIKE RECEPTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0002224 all species →	Biological Process	toll-like receptor signaling pathway	Interproscan
GO:0004888 all species →	Molecular Function	transmembrane signaling receptor activity	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0006954 all species →	Biological Process	inflammatory response	Interproscan
GO:0006955 all species →	Biological Process	immune response	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0038023 all species →	Molecular Function	signaling receptor activity	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	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
K18809	TL; protein toll	-	Toll and Imd signaling pathway	ko04624	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of CAB4004819.1 across 21 RNA-seq samples of Paramuricea clavata. 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.

21Samples

12TPM > 0

4Conditions

0.7Max TPM

0.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	4	0.13	0.45
apical branchlet · Temperature treatment at T0	6	3	0.04	0.14
apical branchlet · Temperature treatment at T25	5	2	0.17	0.66
apical branchlet · Control at T0	4	3	0.15	0.33

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.45
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.18
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.15
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.14
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.11
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.02
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.66
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.18
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.33
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.20
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.09
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00

Source: CnidoSite RNA-seq expression matrices (PCLAV_TPM, StringTie quantification over 21 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.