Gene detail

Detailed information of CAB4004693.1 in Paramuricea clavata

Genomic Location: pcla8_s005075:22893...25062
NR annotation: CAB4004693.1, Hypothetical predicted protein [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-PACLA_8A080237

CGCTTTTGCATTTGTTTACACGCGGCAACACAAGAGGTGGAATGTGGATCCGTTATATTCCAATAAGAAGAAGTTCACAATCACGTTGCCATCATCATCACCGAAATCGCAGGCTCCTCAGTAACATATTTAGGCAGAAAttgagaaatatttttcattcTAATGATTCTATAAGATAAAACAAAACGATATTATGCAGAATGCCACTAGATTTTATCAAAACTACCTTCGAATCTGCGTGCAGAATAAATCAATGCTCAAAAATGCCACAGGTATGTGTtctattttctcaaaatattCTCAACTGAACAGAAATAAGCATGGCATGCTAGGTACAATGCCTCTGACAACCTCCACTGGTGAAAACTTGGAAAAATCAATTGAAATGGATTTGAAATCAGGAAAAGAATCTCGAATATTTGAGAGATTGGATAAAGCAGATGATTTATCTTTACTTAGACTACCAAAACGAACATGGGGAagtgtgttttatattttgaatcaaAACGAAGACTTTGGAACACTGGACAAAATCAgagcaaaaattaaagattTGAATATAAATTGCGGAGAAGGTGCTTTGACAACATTGATCAAATCTTATGTTAGAAGAAACCAACATATAAATGCTGTTAATGtacttgatcaaatgaaaaaTGCTGGATTATTGAGACACACTAGAACATATTTTCCTATAATCACTAATCTTGCTGAAAATGGCcatcaaaataaagcttttGAACTTTTTGATGAGATGCACCATTATACATTTAAATCCAAGAAAAGCATCACCATGTCCATACCTCCAAATATGACAGTTGCTCTGATTAAGTCTTGTTTTCAAAGTGAAATATCTGAATATAACAAAGCTACGGAAGTTCTGCTCTGGTATAACCACAGTGGTCAACTGCTGACATTGCAAATATTAAATGCAATAAAAGAGTGGTTAGACAATGATCCTGTGAATAGCTGGACCATGAAGGAttgtcatatttcaaaagaAGGATTATGCAACAACTGTGGAAAATATTTGGACTCAGGACATTTAACATCAAATGAAAGAGAAGAGTTGAAATTAGATATTTTAAACACTATAGAAGGTATATTCAACTCAGAGGGAAAAGCTGGCAAAAGAGAAAGCTTTTGTAAGTTTGTGACATTTCTAAAACAATGTTCTCCTTGTGATGTCATCATTGATGGCATGAGTATTGGATTGTCTTCAAATGTTCAAAAACAAAAGAAGAGATTTAATTTCAATACATTGTTAAAAGTATCAGATCATTTTATTCAACAAGAAAGGAAAGTTTTGGTCTTACTCAACACATCTATCCCACCATCTTTCCTCTCAAACAATGTTCAATACTTTGTGAGTGATGCTGGTGATGATGATCTGTATATAATGTATGCAAGTGCAATGTGGAACATGGCACCATTTCTTGTTACTCGGGACAAGTTTCGTGAACACAGGTTTCTCCTTGCATTTCATAATCATGCTTCCTATATGAAGTGGATCAGATCACATACTATCAGAGTTAGTGTCAAAAGAGATGCACTGACATTTCATAGGCAGAAATATGATCCTGTTGTACAAACAGGAAATTCATCTTGGCATTTTTCACTAGTTGATGGCAGCTGGTTCTGTGCCAGGAAAGTAGCgatataaattatatgtattatatattgtacataCTATCTTCTATGtattatatattgtacatattattagaatgttagggtttgtaagccaagtgattatatacattttaagaccttaccaggaacgactgcgaaaaatgcagcacaaggtcctctggtaggaattgaacctacagccctgcgattccggtgcagcgctctaaccaactgagctacagaggccagctgttgagctggcctcagttggttagagcgctgcaccagaatcgcagggccgtaggttcaactcctaccagaggactttgtgctgcatttttcacagtcgttcctggtaaggtcttaaaatgtatataatcacttggcttacaaaccctaacaccctaataataattccaccaagtgaagtgcaagataccacatcattcaagtccaccttatatTGTACATACTATCCTCTAtgtattatatattgaatactgATGAAACTCATGATCTTTGTTGCAGTACAAAACAG

Protein

UniProt (Swiss-Prot top hit)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009986 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16953 all species →	PRORP	Protein-only RNase P	Domain	Interproscan
PF01535 all species →	PPR	PPR repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR031595 all species →	Domain	Protein-only RNase P, C-terminal	Interproscan
IPR002885 all species →	Repeat	Pentatricopeptide repeat	Interproscan
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13547 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0001682 all species →	Biological Process	tRNA 5'-leader removal	Interproscan
GO:0004526 all species →	Molecular Function	ribonuclease P activity	Interproscan
GO:0030678 all species →	Cellular Component	mitochondrial ribonuclease P complex	Interproscan
GO:0097745 all species →	Biological Process	mitochondrial tRNA 5'-end processing	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
K17655	MRPP3; mitochondrial ribonuclease P protein 3	-	Mitochondrial biogenesis	ko03029	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4004693.1 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

1.3Max TPM

0.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	4	0.74	1.32
apical branchlet · Temperature treatment at T0	6	2	0.07	0.33
apical branchlet · Temperature treatment at T25	5	1	0.08	0.40
apical branchlet · Control at T0	4	1	0.18	0.70

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	1.32
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	1.25
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	1.09
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.79
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
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.33
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.08
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977428	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	0.40
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	0.70
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.