Gene detail

Detailed information of CAB4011345.1 in Paramuricea clavata

Genomic Location: pcla8_s007314:4730...8645
NR annotation: CAB4011345.1, DIS3-like exonuclease 2 isoform X1 [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

PACLA_8A015944

ATGGCGTCAACAGCGACTGAGAATGACCATGTATTGGCTGAAAGTGCGGAGAAAAATGACGAGCATTTGAAAGAAACCGAAGAAATCGATGGTCGTAAGCAAAAGAAAAGGAGACGCAGACGAAAACGTGGAAAAAAACACGGATCCGAAGGTGATTTTGTAGTAAAGTCAGAGGAACGGACCACAGGTGAGGAAACTTCTACCGTACGGAATAAAAGCCCCAGTACCAAGAATTCTGATTTGAGCTCTGTTGAAAAACATGAAAAAGAGAATCCCTTACAAGCTGAGCAAAACAGCGCAGCTGATGCAAAGCAAAAGACAGATACTGAACGGCTTAGCACGATAGCAACAAAAGAGAAATTGAAAGGGGGCCCTCCGCAATCCGAGGCAAGCGCTCCTGACAAACAAACAAGCCATAACAACAAGCACTCCCCAAATAAATCTGATGTCACGAACACTCCAAATAATTCGTCCAAACATAAACAAAGTTGTCATAGTGAACACATACCAAGTACACCAGATACTCACGAAACTGCAGATCGCAACACACCAAAACATCATGGCCGTCAGTACAGAGGAAGAATACCGAGACATGGTCAAGATTATCAGGGCACACCTCCAAATCAAACTTCTAAACAGTCAAGTCATCACAGACAAAACACACCTGGTGATGACGACAAGCAAAATTCACCTACAAGACGGTCGAACCATGAAGGCCCTCAAACTCCAGTAACCGAGGAAGCTGGTCACCATCGTGAAGGTGGTCATTCATCCAAAAAGAAAAAACACAAGAAAAAGATGATATTTGAAGAATATTGGAGCAAGGAGAAAGTGTCGGCTGCCCTGAAAAGAGGTGAAGTTCACAAGGGAAACTTGCGGATAAGTGCTAAAAATTATGAAATGGCATGGGTTAGCTTACGAGAGTTTAAAAGAGACATTACAATTTTGGGTATGGTGCCGAGGAACAGAGCACTTGATGGTGATGTAGTTGCCCTCGAGATTTTACCAAAGGAGAATTGGAAAATCATGCATGACGAAATGAAGTATCATGAGGATCTGGTAGAAGATACTGGGGAAAAGTTAACCAATCTACATCTTACTTCCGAAGAAGAAAATAACGGCAATGGGGAGAAAAGTGGCAGTACCCTCCCTGGTTCTCCCAAAAGTCCTGGCGAGAAACGTAAGATTGATGTTAATGAAGTACCTGAACAATATCTTCAGAGGACTGCCAAAGTTGTTTATATCATCGAGAAGAAACATCCAAGAATTGCATGTGGTTACTTGAGACCGATGAAAGATCCAAATGACCCAGATGGGTTGTTCTCGCCAACCGATTGTCAGCTACCGAGATTCAGAATAGCGCACAGCGATTGTCCGCCAGGGTTCTTCAACCGCCCACAAGATTTTGCAACAACCTTGATGATTGTTCGTTTGACCGAATGGCATCGAGAAGCTCCTCTGGATTCCTGTTTGGCCAAAGGTGTTTTCGCAAGGAGTCTTGGAGAGGCTGGTGAAATTGAACCAGAGACGGACAGTATCTTGTTGATAAATGATATAGACTCTAGTCCATTTTCTCAAGAAGTCTTAGATTGCCTACCAAAAGATTTACCATGGAAGATCCCTCAGGAAGAACTCGAATCTCGCCGTGATTTTCGAGACGTTTGTGTGTTTTCGATAGATCCGGCTACTGCTCGAGACCTTGATGATGCACTGCACTGCACCAAACTTGACGACGGAACTTTTGAACTTGGCGTTCACATTGCGGACGTCAGTTTCTTTGTCAAAGAAAACACGGCCCTTGACGAGGTAGCTTCTTCAAGAGCAACTTCGACATACATGGTTCAAAAAGTAATCCCAATGCTTCCTCGACTGCTATGTGAAGAACTGTGCAGTCTTAATCCAAACGAAGACCGTCTTACATTCTCAGTCGTGTGGAAGATGGATGGCAACGGAGTTATTCAAGACGAGTGGATGGGAAAAGGGATCATACGATCACGTGTGAAGTTATCCTACGAGCATGCGCAAGACATGATCGACAAACCCGAGAAGGTGTGGGGAGAAAAAGAACACCCTCCCTTAGCAAGTGGAGCAACGATTACGGACATCGTGCAACGTGTTCGTGACCTTCACCAAATTGCTGCTAAGCTGCGCCAGCAACGTTTTGACAATGGAACACTGCGACTTGACAAGGCAAAGATTTCATTTGATCTGAATGGCGAAACTGGCCTCCCACATGGCTGGCATCCGTATGTTCAACGAGAAAGCAACAAATTGATTGAAGAATATATGTTGTTAGCCAACATGGCTGTCGCACGTCGTATTTACGAAGCGTTTCCCGATAGAGCGATGCTACGTTGTCATCCAAAGCCTGACGCAAGACAACTGGAGGAAGTTAGTGCGTTGTGTAGTTCTTTAGGAATCAATTTCTCGCATGCATCATCGAAAGGCATCCAGGAAACGTTGAACACTTTCCCTCCGAATTCTCCTGAGCATTTAGTGCTTTCGCATCTTTGTATGAAGCCGATGAAAGCTGCGAAATACTTCTGCGCTGCAGCTGCGGAAGGCGATCCTGAAGAATTCCTACACTATGCTCTCAGTGTCCCTCTTTATACCCATTTCACATCACCGATCCGAAGATACCCTGATGTTATCGTTCATCGACTTCTTGCCGCGTGTTTAGAGGTCGAACCATCGCCCGAATTTGCATCCGAAGACCTCGACGTAATCGCAGGACGGTGTAACGATAAGAAACTTGCCGCAAAGAAAGCAGGGGAGGCAAGTACAGAGTTATACCTAGGAGCTTTTGTACGAGAGTGTGGGCCTCTAACCGAAGATGGCATTGTCGTCCATGTCATGCACGAATCGGTCGATGTCTTAGTGCGTGAATTTGGCATCATAAAGAGGGTCTACTTTAAGTTTTGTGATGAGGTGAAATCGTTTGATTTTCAAGAAGGGCACAAGACGCGTCCAGCTGAAGTATTGATAACTTGGAAAGGTCCACATGATAAGAGAAAGACGGACGAAGAACAGGATGCGGATAGGAAGAAGGGTAGCCACAAAGGCGAGAAGACATCGAGCAAGGAAGATAGCCACCATCATCAGCATAGGCGTACCGATACGCTCAAGATCTTCACTCGCGTTCGAGTTCTACTAAAGACCGAAAGCGACAAAACGAAGAATAAAGGTGGACTAAAGTTCTCTGGGGAACTTCTTCAAAACAGTGGGAAGGAATAA

Transcript

rna-PACLA_8A015944

GCATTGCAAAATTAAAGGTGATGCAAAACGATATGATATTATCATATTTTTGCGACTAAAACTCTGTTAAAAGGCATTGTAAAACGCAAGTAACTCGGTACGTTGTTAGGTGAGTACCGTGCTGCCTATTACTTTTGCATTTGTAGACAAAAACGTTTAGATTTTGTAGTTTTGAGACGAAATATTAGCCATAGGTTATGGCGTCAACAGCGACTGAGAATGACCATGTATTGGCTGAAAGTGCGGAGAAAAATGACGAGCATTTGAAAGAAACCGAAGAAATCGATGGTCGTAAGCAAAAGAAAAGGAGACGCAGACGAAAACGTGGAAAAAAACACGGATCCGAAGGTGATTTTGTAGTAAAGTCAGAGGAACGGACCACAGGTGAGGAAACTTCTACCGTACGGAATAAAAGCCCCAGTACCAAGAATTCTGATTTGAGCTCTGTTGAAAAACATGAAAAAGAGAATCCCTTACAAGCTGAGCAAAACAGCGCAGCTGATGCAAAGCAAAAGACAGATACTGAACGGCTTAGCACGATAGCAACAAAAGAGAAATTGAAAGGGGGCCCTCCGCAATCCGAGGCAAGCGCTCCTGACAAACAAACAAGCCATAACAACAAGCACTCCCCAAATAAATCTGATGTCACGAACACTCCAAATAATTCGTCCAAACATAAACAAAGTTGTCATAGTGAACACATACCAAGTACACCAGATACTCACGAAACTGCAGATCGCAACACACCAAAACATCATGGCCGTCAGTACAGAGGAAGAATACCGAGACATGGTCAAGATTATCAGGGCACACCTCCAAATCAAACTTCTAAACAGTCAAGTCATCACAGACAAAACACACCTGGTGATGACGACAAGCAAAATTCACCTACAAGACGGTCGAACCATGAAGGCCCTCAAACTCCAGTAACCGAGGAAGCTGGTCACCATCGTGAAGGTGGTCATTCATCCAAAAAGAAAAAACACAAGAAAAAGATGATATTTGAAGAATATTGGAGCAAGGAGAAAGTGTCGGCTGCCCTGAAAAGAGGTGAAGTTCACAAGGGAAACTTGCGGATAAGTgctaaaaattatgaaatggcATGGGTTAGCTTACGAGAGTTTAAAAGAGACATTACAATTTTGGGTATGGTGCCGAGGAACAGAGCACTTGATGGTGATGTAGTTGCCCTCGAGATTTTACCAAAGGAGAATTGGAAAATCATGCATGACGAAATGAAGTATCATGAGGATCTGGTAGAAGATACTGGGGAAAAGTTAACCAATCTACATCTTACTTCCGAAGAAGAAAATAACGGCAATGGGGAGAAAAGTGGCAGTACCCTCCCTGGTTCTCCCAAAAGTCCTGGCGAGAAACGTAAGATTGATGTTAATGAAGTACCTGAACAATATCTTCAGAGGACTGCCAAAGTTGTTTATATCATCGAGAAGAAACATCCAAGAATTGCATGTGGTTACTTGAGACCGATGAAAGATCCAAATGACCCAGATGGGTTGTTCTCGCCAACCGATTGTCAGCTACCGAGATTCAGAATAGCGCACAGCGATTGTCCGCCAGGGTTCTTCAACCGCccacaagattttgcaacaaccTTGATGATTgttcgtttgaccgaatggcatCGAGAAGCTCCTCTGGATTCCTGTTTGGCCAAAGGTGTTTTCGCAAGGAGTCTTGGAGAGGCTGGTGAAATTGAACCAGAGACGGACAGTATCTTGTTGATAAATGATATAGACTCTAGTCCATTTTCTCAAGAAGTCTTAGATTGCCTACCAAAAGATTTACCATGGAAGATCCCTCAGGAAGAACTCGAATCTCGCCGTGATTTTCGAGACGTTTGTGTGTTTTCGATAGATCCGGCTACTGCTCGAGACCTTGATGATGCACTGCACTGCACCAAACTTGACGAcggaacttttgaacttggcgtTCACATTGCGGACGTCAGTTTCTTTGTCAAAGAAAACACGGCCCTTGACGAGGTAGCTTCTTCAAGAGCAACTTCGACATACATGGTTCAAAAAGTAATCCCAATGCTTCCTCGACTGCTATGTGAAGAACTGTGCAGTCTTAATCCAAACGAAGACCGTCTTACATTCTCAGTCGTGTGGAAGATGGATGGCAACGGAGTTATTCAAGACGAGTGGATGGGAAAAGGGATCATACGATCACGTGTGAAGTTATCCTACGAGCATGCGCAAGACATGATCGACAAACCCGAGAAGGTGTGGGGAGAAAAAGAACACCCTCCCTTAGCAAGTGGAGCAACGATTACGGACATCGTGCAACGTGTTCGTGACCTTCACCAAATTGCTGCTAAGCTGCGCCAGCAACGTTTTGACAATGGAACACTGCGACTTGACAAGGCAAAGATTTCATTTGATCTGAATGGCGAAACTGGCCTCCCACATGGCTGGCATCCGTATGTTCAACGAGAAAGCAACAAATTGATTGAAGAATATATGTTGTTAGCCAACATGGCTGTCGCACGTCGTATTTACGAAGCGTTTCCCGATAGAGCGATGCTACGTTGTCATCCAAAGCCTGACGCAAGACAACTGGAGGAAGTTAGTGCGTTGTGTAGTTCTTTAGGAATCAATTTCTCGCATGCATCATCGAAAGGCATCCAGGAAACGTTGAACACTTTCCCTCCGAATTCTCCTGAGCATTTAGTGCTTTCGCATCTTTGTATGAAGCCGATGAAAGCTGCGAAATACTTCTGCGCTGCAGCTGCGGAAGGCGATCCTGAAGAATTCCTACACTATGCTCTCAGTGTCCCTCTTTATACCCATTTCACATCACCGATCCGAAGATACCCTGATGTTATCGTTCATCGACTTCTTGCCGCGTGTTTAGAGGTCGAACCATCGCCCGAATTTGCATCCGAAGACCTCGACGTAATCGCAGGACGGTGTAACGATAAGAAACTTGCCGCAAAGAAAGCAGGGGAGGCAAGTACAGAGTTATACCTAGGAGCTTTTGTACGAGAGTGTGGGCCTCTAACCGAAGATGGCATTGTCGTCCATGTCATGCACGAATCGGTCGATGTCTTAGTGCGTGAATTTGGCATCATAAAGAGGGTCTACTTTAAGTTTTGTGATGAGGTGAAATCGTTTGATTTTCAAGAAGGGCACAAGACGCGTCCAGCTGAAGTATTGATAACTTGGAAAGGTCCACATGATAAGAGAAAGACGGACGAAGAACAGGATGCGGATAGGAAGAAGGGTAGCCACAAAGGCGAGAAGACATCGAGCAAGGAAGATAGCCACCATCATCAGCATAGGCGTACCGATACGCTCAAGATCTTCACTCGCGTTCGAGTTCTACTAAAGACCGAAAGCGACAAAACGAAGAATAAAGGTGGACTAAAGTTCTCTGGGGAACTTCTTCAAAACAGTGGGAAGGAATAACTGTTAGGAAACAACCTGAAAACATTTTAACAATCGTTATTCAATCaagaaacattttaagataattGTGTGACTATTATGACTATTGCCTGTATATGTACTGATGAACATGCATGTCAGGCAATTACGAATGTATGTTGgaacaaattaattttgaatTAGAATTTAATGAGCTGCATATCGTTTTATTAAGGATTGAGACGTTTTtaaagtacaaaatattttaattgtgTGTAAACTTTGTAGTAACGGTTTTAAACCGTAGTATATACCTTAATGAAGCGACGTTTTCGAattgtttgaattgcaaatGTGGTAAAAGCGTCATTGAATATCTTTTAACTATATCTCTAAAGAAGGCATACAAAAAGTCAGTTACGTTGATTATATAAAGCACATTTCGTTATAATCTCAGCGGAAAATGTCGCTTGCTTAAGATATTTCTAATAAGGTTTTTTCACTGTTGTAGTAAAATTTGTTGGATG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q0V9R3	DIS3-like exonuclease 2 OS=Xenopus tropicalis OX=8364 GN=dis3l2 PE=2 SV=2
Q8IYB7	DIS3-like exonuclease 2 OS=Homo sapiens OX=9606 GN=DIS3L2 PE=1 SV=4
Q8CI75	DIS3-like exonuclease 2 OS=Mus musculus OX=10090 GN=Dis3l2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007567 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17877 all species →	Dis3l2_C_term	DIS3-like exonuclease 2 C terminal	Domain	Interproscan
PF17849 all species →	OB_Dis3	Dis3-like cold-shock domain 2 (CSD2)	Domain	Interproscan
PF17216 all species →	Rrp44_CSD1	Rrp44-like cold shock domain	Domain	Interproscan
PF00773 all species →	RNB	RNB domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR022966 all species →	Conserved_site	Ribonuclease II/R, conserved site	Interproscan
IPR028591 all species →	Family	DIS3-like exonuclease 2	Interproscan
IPR050180 all species →	Family	RNR Ribonuclease	Interproscan
IPR001900 all species →	Domain	Ribonuclease II/R	Interproscan
IPR041093 all species →	Domain	DIS3-like exonuclease 2, C-terminal	Interproscan
IPR041505 all species →	Domain	Dis3-like cold-shock domain 2	Interproscan
IPR033771 all species →	Domain	Rrp44-like cold shock domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23355 all species →	RIBONUCLEASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000175 all species →	Molecular Function	3'-5'-RNA exonuclease activity	Interproscan
GO:0034427 all species →	Biological Process	obsolete nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'	Interproscan
GO:0000932 all species →	Cellular Component	P-body	Interproscan
GO:0006402 all species →	Biological Process	mRNA catabolic process	Interproscan
GO:0010587 all species →	Biological Process	miRNA catabolic process	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0004540 all species →	Molecular Function	RNA nuclease 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K18758	DIS3L2; DIS3-like exonuclease 2	EC:3.1.13.-	Messenger RNA biogenesis	ko03019	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4011345.1 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

15.1Max TPM

2.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	4	1.95	4.58
apical branchlet · Temperature treatment at T0	6	6	4.84	15.13
apical branchlet · Temperature treatment at T25	5	1	0.81	4.04
apical branchlet · Control at T0	4	1	0.81	3.25

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	4.58
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.65
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.31
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.17
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
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	15.13
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	6.96
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	2.28
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.81
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.54
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.31
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	4.04
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	3.25
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.