Gene detail

Detailed information of CAB3985198.1 in Paramuricea clavata

Genomic Location: pcla8_s000865:54741...57239
NR annotation: CAB3985198.1, DC-STAMP domain-containing 2-like [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

PACLA_8A042236

ATGCCAAGAGGAAAAGCCGGCTTAAAATCCCCCACGAAAGCAGATGCAAAAGAGAATTTGCAACAAAGCTCTACAGTCGAGATGAAGGACATAGAATCGACGGCGTCTGTTGACATTCGTGGGGAAGAAGGCACGTGTGAGCTATCCACACAAAGCGAGTTACCTAACAATATTTCGGATATGTCTGTAGATGCCAATACTACAAGCAACGAAGGGGACGGCAGTTCGCTACCAAGGAAACCAAAGCGGCTTTTAACTTTCGCAGGTAGTAAGAAAAAGGACGCGAAGCGACGTCAAAGCGGCAACAAGACCGAGTCAACTGACAACAACAAACAGGCGTCACCTCAGGTGGAAACACCACAAAAACAACAGAGTATTAAAGCTGAGAGGGATAACACTTCACCCAAGAAGAAAAAGAATATCTGCCAATCTTATAAACGACAATTCTTTGACGATGGACACGCTTACGAAGACCCAAGCTTGGTAGTTAATAATTCAACGACGCCACCACACATGACTGAACAGAATTATCCCGAGAATCCGACAGAAGCAATTAAAAAGCAAAGCAAGATGGAAGAACGACCACAAAGCCCTAGTAGTGTAAAAACCGGTTTAAGTAAATCAACCGAAAGCATAAAAGCAGCCGTAAAAGGCTTGAAAGAAGGGCATGCCTCTATCATGTCGGAAACTTCAATTCCTCGAAGTATATTTGCTGCACTCGTGGCGTTATTGCTTTCGCTTATCGTTTTTCTGGCGGTGTATTTCTTGCTTCATTGTCATGCCGTTTTGTCTGTTGCTGTTGCCATTCTTGTGTATGTAGTAATATTCATAAACCTCGGCTTTATGGATGGAAAACGTATGAAGTGTTTGATATTGCTCTTGTTACCAAGCGTTTGTTCTCGAGGCGGGAGGCTAGCCTTGTATTTATTACTCGGCTACTTTGTTATAACTGGACCTTTATGTAATATGATCGGAAACATTAAAACTGTCAAGAACTCGATGAAGTGTATAAATAATGAACGGCCTGAGGTAGTCAGAGGAATTATAAAAACCTTTGAAGCGGCGCAAAATTGTATGAATAGTAAGCAAGTGCTGTCCACAAAAGCAAATAAGTCCATGGAGATTAAATGTCTAGAGCAAAGGATTGAGCAAAGGTGTTTATCTGTCAAAGATAAATTTCAACACAGATGCGGACTGAAAGATCATAAAATCGCCCCAACACTGTGTAATTTATCTGCAGAATTGTCCTGTATGAATGAAACAACTATTCTTAGAAATCTACAAGATTGCCCAAAGAAATTATCAGAAAGATATTGCCACAGCGAATTCCATGAAGTCTTAGAATTTCTAGATGAGATTACCAGTGATGATGATGGTTGTGGCTTCCTAGAAATATTCAGCATGTTATTTCCACTGCTCATAATATTTGTGTTGTATGAAGGCTATAATTATGAGAATAATTACAGGACATATAATGACTTTCATAACTTCTTCCTAACCGGACATTTTCAAATTATTGACCAGAGTCGAAGCTCGTGTGACCGAGATGCAGTGTTGCCTTTACGGAAGGTGGAACTTCGCAAGCACGTACGGCCGGCAACTGTATTTAACCTGACAGATATCGAGAAGAAAGAATTATGGAGTAATTTGAAAACATACCTACTAGCTTTGCTAATTGTGTTGTTTCTGATACTTGCCGATCTCTATATGTTCCGCATGTTTGATATGAAAAACAATGGAAAATTGCAATCAGACAGTGACGTTGTCCTAACTAATAACACTCCTATCACCAATATCAGTGAACATTTGAATAAAGCTAATCAAAATAACAATGAAACACGTCAGTTAAGCAACATAACTGGTTTTAAAGTAAGTACTACATCTGCTACAGATGGTTTTAATGTAAGTACTACATCTGCTCCAGAAATAAATCCCAACCCCCCTGTCGAAACCACCAATATTTGTTCAGCAAGTGTCGACCCTCCTGGTTCAATTTCTAAAATAATCCTACCAATAATTTTCTCCCTCCTGCTATTGATTATCATCTTTCAAGCCCATGTCTCGAGACTACAATGGTACATTTGCAGCCGGCTTTACACAATGCGAGAGAAAGAACGGGTATTTTACTTGTACAATAAGATCTTGGAAGACCGTGTTCAGTTGCTGGAAGATTGCCGAAAGAGAATGAAGTGTTATCGCCGTGAAACAAAAACTCTAAACTCACTAAAAATAACAAGAATTCTTGCCCAACAACTTCCCTGGCTTTCAAAGATATTCAAGATCTTTCATTTTAATCTGAGACGGTGTATAATTTGTAACGATTCAGAAAAGCCAGAATTCAAACTATGCCATGGCCTAGATTGTTCCTGTGTCTATTGTCTGACATGCTCATTTGATATTGATAAAAAGTGTTTGTATTGTGACACTGAACTCAAACATAGTTTATCTCTGAAACAGCCTGATGAAAAAGTGGTTAGTTCCAAAGAGTCTCTGGTATAA

Transcript

rna-PACLA_8A042236

ATGCCAAGAGGAAAAGCCGGCTTAAAATCCCCCACGAAAGCAGATGCAAAAGAGAATTTGCAACAAAGCTCTACAGTCGAGATGAAGGACATAGAATCGACGGCGTCTGTTGACATTCGTGGGGAAGAAGGCACGTGTGAGCTATCCACACAAAGCGAGTTACCTAACAATATTTCGGATATGTCTGTAGATGCCAATACTACAAGCAACGAAGGGGACGGCAGTTCGCTACCAAGGAAACCAAAGCGGCTTTTAACTTTCGCAGGTAGTAAGAAAAAGGACGCGAAGCGACGTCAAAGCGGCAACAAGACCGAGTCAACTGACAACAACAAACAGGCGTCACCTCAGGTGGAAACACCACAAAAACAACAGAGTATTAAAGCTGAGAGGGATAACACTTCACCCAAGAAGAAAAAGAATATCTGCCAATCTTATAAACGACAATTCTTTGACGATGGACACGCTTACGAAGACCCAAGCTTGGTAGTTAATAATTCAACGACGCCACCACACATGACTGAACAGAATTATCCCGAGAATCCGACAGAAGCAATTAAAAAGCAAAGCAAGATGGAAGAACGACCACAAAGCCCTAGTAGTGTAAAAACCGGTTTAAGTAAATCAACCGAAAGCATAAAAGCAGCCGTAAAAGGCTTGAAAGAAGGGCATGCCTCTATCATGTCGGAAACTTCAATTCCTCGAAGTATATTTGCTGCACTCGTGGCGTTATTGCTTTCGCTTATCGTTTTTCTGGCGGTGTATTTCTTGCTTCATTGTCATGCCGTTTTGTCTGTTGCTGTTGCCATTCTTGTGTATGTAGTAATATTCATAAACCTCGGCTTTATGGATGGAAAACGTATGAAGTGTTTGATATTGCTCTTGTTACCAAGCGTTTGTTCTCGAGGCGGGAGGCTAGCCTTGTATTTATTACTCGGCTACTTTGTTATAACTGGACCTTTATGTAATATGATCGGAAACATTAAAACTGTCAAGAACTCGATGAAgtgtataaataatgaacggccTGAGGTAGTCAGAGGAATTATAAAAACCTTTGAAGCGGCGCAAAATTGTATGAATAGTAAGCAAGTGCTGTCCACAAAAGCAAATAAGTCCATGGAGATTAAATGTCTAGAGCAAAGGATTGAGCAAAGGTGTTTATCTGTCAAAGATAAATTTCAACACAGATGCGGACTGAAAGATCATAAAATCGCCCCAACACTGTGTAATTTATCTGCAGAATTGTCCTGTATGAATGAAACAACTATTCTTAGAAATCTACAAGATTGCCCAAAGAAATTATCAGAAAGATATTGCCACAGCGAATTCCATGAAGTCTTAGAATTTCTAGATGAGATTAccagtgatgatgatggttgtgGCTTCCTAGAAATATTCAGCATGTTATTTCCACTGCTCATAATATTTGTGTTGTATGAAGGCTATAATTATGAGAATAATTACAGGACATATAATGACTTTCATAACTTCTTCCTAACCGgacattttcaaattattgacCAGAGTCGAAGCTCGTGTGACCGAGATGCAGTGTTGCCTTTACGGAAGGTGGAACTTCGCAAGCACGTACGGCCGGCAACTGTATTTAACCTGACAGATATCGAGAAGAAAGAATTATGGAGTAATTTGAAAACATACCTACTAGCTTTGCTAATTGTGTTGTTTCTGATACTTGCCGATCTCTATATGTTCCGCATGTTTGATAtgaaaaacaatggaaaattgcaatcagaCAGTGACGTTGTCCTAACTAATAACACTCCTATCACCAATATCAGTGAACATTTGAATAAAGCTAATCAAAATAACAATGAAACACGTCAGTTAAGCAACATAACTGGTTTTAAAGTAAGTACTACATCTGCTACAGATGGTTTTAATGTAAGTACTACATCTGCTCCAGAAATAAATCCCAACCCCCCTGTCGAAACCACCAATATTTGTTCAGCAAGTGTCGACCCTCCTGGttcaatttctaaaataatcCTACCAATAATTTTCTCCCTCCTGCTATTGATTATCATCTTTCAAGCCCATGTCTCGAGACTACAATGGTACATTTGCAGCCGGCTTTACACAATGCGAGAGAAAGAACGGGTATTTTACTTGTACAATAAGATCTTGGAAGACCGTGTTCAGTTGCTGGAAGATTGCCGAAAGAGAATGAAGTGTTATCGCCGTGAAACAAAAACTCTAAACTCACTAAAAATAACAAGAATTCTTGCCCAACAACTTCCCTGGCTTTCaaagatattcaagatctttcATTTTAATCTGAGACGGTGTATAATTTGTAACGATTCAGAAAAGCCAGAATTCAAACTATGCCATGGCCTAGATTGTTCCTGTGTCTATTGTCTGACATGCTCATTTGATATTGATAAAAAGTGTTTGTATTGTGACACTGAACTCAAACATAGTTTATCTCTGAAACAGCCTGATGAAAAAGTGGTTAGTTCCAAAGAGTCTCTGGTATAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9VU52	Protein sneaky OS=Drosophila melanogaster OX=7227 GN=snky PE=2 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009043 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07782 all species →	DC_STAMP	DC-STAMP-like protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051856 all species →	Family	Cell Surface Receptor and E3 Ligase Protein	Interproscan
IPR012858 all species →	Domain	Dendritic cell-specific transmembrane protein-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21041 all species →	DENDRITIC CELL-SPECIFIC TRANSMEMBRANE PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	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
K22375	DCST1; E3 ubiquitin-protein ligase DCST1	EC:2.3.2.27	Ubiquitin system	ko04121	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB3985198.1 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

9TPM > 0

4Conditions

14.9Max TPM

2.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	4	6.15	14.94
apical branchlet · Temperature treatment at T0	6	3	2.39	7.10
apical branchlet · Temperature treatment at T25	5	1	0.74	3.72
apical branchlet · Control at T0	4	1	0.21	0.85

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	14.94
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	8.43
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	7.77
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	5.77
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	7.10
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	4.33
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	2.92
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	3.72
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	0.85
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.