Gene detail

Detailed information of CAB3984602.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB3984602.1, 50S ribosomal L16 [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB3984602.1 in PCLAV (the gene ID may belong to a different isoform naming scheme). Try the gene search.

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q04PU5	Large ribosomal subunit protein uL16 OS=Leptospira borgpetersenii serovar Hardjo-bovis (strain JB197) OX=355277 GN=rplP PE=3 SV=1
Q055D7	Large ribosomal subunit protein uL16 OS=Leptospira borgpetersenii serovar Hardjo-bovis (strain L550) OX=355276 GN=rplP1 PE=3 SV=1
Q72NG8	Large ribosomal subunit protein uL16 OS=Leptospira interrogans serogroup Icterohaemorrhagiae serovar copenhageni (strain Fiocruz L1-130) OX=267671 GN=rplP PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006636 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00252 all species →	Ribosomal_L16	Ribosomal protein L16p/L10e	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000114 all species →	Family	Large ribosomal subunit protein uL16, bacterial-type	Interproscan
IPR047873 all species →	Family	Large ribosomal subunit protein uL16	Interproscan
IPR036920 all species →	Homologous_superfamily	Large ribosomal subunit protein uL16 superfamily	Interproscan
IPR016180 all species →	Domain	Large ribosomal subunit protein uL16 domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12220 all species →	50S/60S RIBOSOMAL PROTEIN L16	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0005762 all species →	Cellular Component	mitochondrial large ribosomal subunit	Interproscan
GO:0006412 all species →	Biological Process	translation	Interproscan
GO:0019843 all species →	Molecular Function	rRNA binding	Interproscan
GO:0032543 all species →	Biological Process	mitochondrial translation	Interproscan
GO:0005840 all species →	Cellular Component	ribosome	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 CAB3984602.1.

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

Expression pattern (RNA-seq)

Transcript abundance of CAB3984602.1 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

8TPM > 0

4Conditions

15.4Max TPM

1.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	3	0.09	0.38
apical branchlet · Temperature treatment at T0	6	3	2.58	15.40
apical branchlet · Temperature treatment at T25	5	1	0.05	0.26
apical branchlet · Control at T0	4	1	3.49	13.98

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.38
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.09
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.09
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
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	15.40
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.05
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.04
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
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.26
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
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	13.98
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00
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.