Gene detail

Detailed information of CAB3977974.1 in Paramuricea clavata

Genomic Location: pcla8_s000095:62932...70185
NR annotation: CAB3977974.1, FAD-dependent oxidoreductase [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-PACLA_8A001441

tatatatacacacttcGTCATTGAACCTTTTATCCGTTTTGGAATAACTGAAGAGTTTAAAACTGAAGTGGTTCTTGTTCAGGTAAGGCTATCATATTCTTCTGTgtttcgttttgttttgttttgcatgCGTTGAGCTGTATCTTACAATTCATGATTTTCCTATGAGTGAATACTATATAGACTGTAGCTAAATTAATTGCTGTTCTGAATTAATTCTTAAACTAATTGCGAAGCAATTGCGTGTAACAGTGCCAAAATGTTCTCACGAAGAACCTTGTGGCGGTTAAATGTGTAGAACTTGGCTATTCAAACTCTTGCAACAAGATTCagtatatataccgggtggcgcaaaaaaaagttcacgcgtttgatttagtacagcgaaaaaactataagtgttaCATCGCTGAAATAAACGTAGCTGTATTCATAAacgtctaacttaaattttgagctatagcatgtttatttacgtgcaatattgactgggatatcgccaaataaaattttcaacgaagttttgaaaatctgacaaattggctaaaaatggcctattaaactgttttgataaattttagaatttcgtcagacatattcgcttgtatgaatttaatttgaattgaaacgtgtaacgaatgattttccttatttatttatttgttttattatcatttgaaaagaaacaaaatttcgaaaaagatGGCTCTTTTAATTAAGAATTGCTTCGCAGTATTCCATGTCCCATAGCTATAGGGAATTAAATTAGATCAACAACCGAACAATTTGAGACAGCTTCGTGAAGCGATTATTGCTGATTGCCATAACTTTGACCAGCAAATAAATCCAACGTTCGTTCGATAGTATGGTCACACGTGTAAgaatatagttatttaattttccatGATAAACGCATTATTTACTGCCGTTGTGTTCTTCATATATCGTTAATTCCTTTACTCGTATTTAATAGGCTATTTTCAGCTAATTTTGGCACCTTTTGAAAttgcatattcaaattcatttaCCAATATCTTGGGTAATACGAAACAAAATTCATGTGTTATACATAaaaatttaagttaggccttcctggataggataacatttatttgaggaacgtaacacttatagttttttcgatGTACTAATTCAAAcgcgtgaacttttttttgcgccacccacCCCTTCCCCCgtgccccaccaagatttccgccactgagcTCTTGTCATGTAGCCCACGATgagttttcgcgaacttgcgcgtgacttttacaTTACGTCTTTTAGATTGTGACACGACAAGTGTTATAGGAGGTTTTTTCAATAAGTTATTTCaattaacaataagtgatttcaatagttttcgtttttcgttattttaacaataagtgatttcaatagttttcgggttttttgggacttgttatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatataccttttcCTAATTGAGTATACCgacaagaaaattattaaaatgatgCAAATGACTTCAATGATGAGTTTCATACCTAAAATTCAGATAATTCACTGCTAAAGGTAATCAATCACTAAAGCATTCCCAGCTAATGCGAATTTTGCAGTTATCTGCATTATGAATATCTCGGAACGAACTTAACTCACATTATATAGAAAATAGGGATACAGACTTGAAATTAATTGAGATGGTTCGGTTAAAATTCCTAATGTTGAAGGCAATTTAATGACTTACCAAAGTGTTACTGGATTGTAAATATCGTTATATTTACGAAATTGCATGTTGCGGACTTACGTCATGTGTACTCAGAAGGAATTTGGGATTTACGTTATTTTGAGCAGTTATTTTCAGATCTATAGCACTGTAAAAATACTTGAAGAATGACGTACGCGTACTGAAAATATCTGAATAGTAAAAAGGTTATACTAAGTGCATCGCTTTGCCTTCCTCATTctttcattaaaaaacaaattattatgaCGCATATCATTCAGAATATTTATGTATCGTCAAGTGCATAATTATATTGCAAGGTGCAAATCTCCGCGCACGTACGTGTCATGAACGTCATGGTAAGGTAAGGTATCATGAGTATCTGTAAATATTATACATGCAGATAATTGGGATGTTGATATATGTCAAAGCTAGAAAGGTTTACAGATGCAAAAGCATTGGATTAAGTCCTCACATAACAAGGAAGCACTTGTGTTTAACTTGGTTGAAAACGACTTGCGGCTCAGAAATTGatattttcccgcgcgtaatactaaaatactcaaaacttGCTTCTTTCCCAGGGCTCTCcttttcgtattttacaacacgtcgcaaccaaactttgcaatttcactgattttaagatgctctttcgagctataataatatatttcgtctttcttgtctagatataaaattagtcgatagctggaatTGTCTAATGTTAACGTCTATTGTTACAGGCTATGCCTATGGATGACATCCAAATACGAGCTGAAAGTCACGCAAATCTTCCATTtgtctggggggggggagttactaatataatttttgatggAAAATTCGTAATAAATTCAGGCCTTTTGTTAACATTCCGCGTAATCAGTATATAGTTGTTTCCGTGATGTTGGAACGAGAGCAAAAGAAGACATAACCAAAAccatgtgccaaaacctgaatccgggacaaAAGTcttgaaaatgaccccgccctgaaacggcagtgtcgataTAGCTCTaccttccgaaaaggaaaagcaatagcctttctgaagttcTTATAGTGCTCAGAAGGATTGGTttcaattataatattttatgagaaaatgaccatgcaccaccccaggtaaattgctaattatgcataaaataactaatatgcctggcagaaattaatttttcatatttcgtaaaaaaattatcatgagATGAAAAACTATATGCTTAATTtaattgtcattgttttctttaattaaatataatatacatattatttcaccccccccccctcaccccTAAGAAAACCCATTTgggccatattttgccgtcctGTTTGCCTTTTttcgccgagtctcgcaaatatcatgcatttgttgtacttttatataatcataaatggctaaaAAAAGATTTCGaccaagtttcatcaagttttaaaacaatgcagtgaattttatcttcgatattgtgtccttcgacaTTTCGTAAAATATGGCGCCATTGCAATAGCTCGCCGCTTCTTCGCCGGATAAACACTACTTATTCGTCTTCATATCTATTTAGAATACAGTATGCAAGAcaacttcattgtagaataatCCCAattcgaaaaattgaaaacatttatagCTGCACTTGAGAGGAAAAGATttgattagattagattagaaaTTTATTATCTTTCCCACAGAGGAGCTTTTCAAAGATAATTACAAAAGAAATGCAATaatttacatacatatatatatatttatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatataacaagtcccaaaaaacccgaaaactattgaaatcacttattgttaaaataacgaaaaacgaaaactattgaaatcacttattgttaattGAAATAACTTATTGAAAAAACCTCCTATAACACTTGTCGTGTCACAATCTAAAAGACGTAAtgtaaaagtcacgcgcaagttcgcgaaaactcATCGTGGGCTACATGACAAGAgctcagtggcggaaatcttggtggggcacGGGGGAAGGGGACTCCCCGCCCcaaccttcacggaaaattgaggaattttcggaaattttgacctaaacagcgctaaaaacagtcttttcgaatACAAATTGGGGGTGGGGNNNNNNNNNNNNNNNNNNNNtatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatataacaagtcccaaaaaaaacgaaaactattgaaatcacttattgttaaaataacgaaaaacgaaaactattgaaatcacttattgttaattgaaatcacttattgaaAAAACCTCCTATAAAACTTGTCGTGTCACAATCTAAAAGACgagaaaaaaacgaaaactattgaaatcacttattgttaattGAAATCACCTATTGAAAAAACCTCCTATAACACTTGTGTCACAATCTAAAAGTCACAATCTAAAAGACGTAAtgtaaaagtcacgcgcaagttcgcgaaaactcATCGTGGGCTACATGACAAGAgctcagtggcggaaatcttggtggggcgcgGAGGGGGACCCCCCCCCAACCTTCatggaaaattgacgaattttcggaaattttgacctaaaagagcgctaaaaacagtcttttcgaatacaaattgggggtgggggggtatgtcggaaatttgagatttttgtcggaaatttaggaggctttgccccaccccggaaaaagtgaatttccgccactgcggGGGATCAAAaatttcacgaaacgtttgtttgctatcacagcaacctaactaaatacaTTATACTTATTGTAGTTTTGtaatttatgataaaaacaataaatatttggttatttttatcatcaatcataaaaatacaaaaaatgtataataacTAAATATAGTTAGtcgctgtggtggcgaacaaacgttttgTGAAAATATTCAGTCCCCTGTCATGTAGCCCACAAAGAGTTTTCGCGAACATgtgcgtgacttttaaatttatatcaaCGGAATTTCCAGACCTGCATGGTTAAGTTTCAGCATTAAATTTTGCAAACTGTGTTTAAATTCCAAGCTCCCCAGGCTCTACGGCAATTTATGGGAAAACAAAAACAAAGCTGTTACGGGTAAGAAAGTCGGAAGGAAGGCCTTAACCCAGACACTCGCCGAGTTCATGGCTCTGAGAACGTCATTTAGAAAGACGGTGCTTTGCGAAAAAAATAGTAGCTGCATTGCTACATCATCGTAGAGTTTGGGAGGCTGCATCAACCCAATAATTTTCAACGTTATGTGATAACACGTTATTCAAAAAAATAGAAATTCTAATGAATTGGGTGTGCTTTCAATAAATAATGTGAAGATCTGTACAAACCAGCtaaatgtaatataatttaaCTTCTATCCGAATATCTCTGAGCAGAAACTGCTGTATATAACAGCACTCTTTATAAAATGGTTTTTATGAAATCCATATATAATATAGGGAAAGTACGCGTATATGTGACCCGCCACTCGGTATAATGGTTTCTGcaataatttgttttaattcTACACTGCTATAATACAACGTTATCCATCCAATCTAGCGAATACAAAAGATAACTTCTGGCTAACAATGGAAATGTATGATGTCATTATCGTTGGCGGAGGTCCAATGGGTCTCGCATCAGCTTACGAATGCGCTGTGAAAGAGGGAAAGAAAGTGCTTGTTCTCGAACGGTTTAGCGAATTTGCCAACGTTCACAGTTCGAGTGTTGGATACAGTCGACAATTTCGCGTCAGTTATTCGGAGAAAAATCTGAGCGATCTGGCACTTAAGACCTACGTTATGTGGCAAAACCTCAAGAAAGAAATGAACGACGACAGCCTTCTCCAATTAACTGGCTGTCTCTGGTTTGGTGACGCCAGTGTAGAAAGCAGTGAAGGGAACATTGACCTAGCAATTCAAAATCTTAAGGCTCTAGGTGAAATAGAGGGGAAAGATTACAGAGTTCTGGAGGGAAAAGAGGCGATCATGAACAGTACAGAATTCGCATTCATTTCCAGAGCTGTGGTTGAAATCGACAATCCCAAAGCCCTGTTTACCGTCAAAGGTGGAACTGTCAATGTTCCTGGCCTGGTTTATCATTATGTCGAAGCTTTGAAAATACCAAATGTCATGTTAATAAATAATGCACGAGTGACCAAGATCGACTACTCTGACGAAGAATATGTCGAAGTGAAAGCAGTGGTAGACGGCAATGAGGAGACCTACCGAGGTAACAAGATAATCCTGACCTCCGGAGCATATGTAAACGAAGTATTGTGCACACTTCATCCTCCAGTCGATTTTCGTATTAATGTGATCATCTATCTGTGGTGCTCTACCTACTTCGCAGAAAAACACAAACCTCTTCCTTCAGGAACAGACCCAGTTACATGGCCAATATGGTATTTCTTTGGTCCCAAACCGAAGGACGGCAGTACCGAAGCCCCTAAAGATCACAACGATTATTATGGTTTTCCGTGTGAACCAGACCGTCCCCAGTACCTTAGAGTTGCACCGGCATACACTTCACAAAAGGAATTCGACTTCATGCTCTTTCCCCCTGAAATAAACAAACGGCCACTAGAtaaaaatgctttgaaatttacCAGCAACTTCGTACATAAATTCATGCCTGATTTGGATCCGTCGCTGAAGGAAAAGGAAGAATCCACGTGTATTGCTGGTTTTGCCCAATTGAATGAAAATGTACACGAGAAAGACGAAGGTGCTGGGTTTGTAATTGATTTTCTACTGCCCGAATCGAAACGTATCGTCGTGTTCACTGGCGGCTGGGCAATGAAGTTTGTTCCAATGATCGGAAAGATACTTACTGATCTTGCAATTCGTGGGAAAACTGAGTACCAAGACCTCATCGAGCCAATGAATATCAAACGAGGAGTATTGGTAGACGAACCTGATTGTCCAGGAAACCAATTAAACCCATCAAAAATGAACATCACTCAAAAAGCCAAATcgtttttcgaaaatttttggtGTTAAATATAACCTTCCATAGCTTAATTAAACGTTGAAACATTGTGTGATTAACGTTACATTTGCATTATCATTTTTTGATACATatattgaaatgttttgtcACGCATGCAGTAGAATTGATCTAAAGCTATATAAAGTTACGATGACAATTTTTTCATCATAGGACTTATTGCACATTTCTCTTCGCTGTATGGAGCGTATCAGACGTAATTTTTATCTTCGCTGACGACGATCTCTACTAAATATAGTCCACTTTTATGCCGCTTGGAGttttaatatcaaaatttcaactgTATGGCCAGAGTAAGGtgttaataaaatattgttctTGTTGCTGTT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q54EW2	Putative bifunctional amine oxidase DDB_G0291301 OS=Dictyostelium discoideum OX=44689 GN=DDB_G0291301 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010878 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01266 all species →	DAO	FAD dependent oxidoreductase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR045170 all species →	Family	MTOX family	Interproscan
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan
IPR006076 all species →	Domain	FAD dependent oxidoreductase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10961 all species →	PEROXISOMAL SARCOSINE OXIDASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008115 all species →	Molecular Function	sarcosine oxidase activity	Interproscan
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0050660 all species →	Molecular Function	flavin adenine dinucleotide 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
K00306	PIPOX; sarcosine oxidase / L-pipecolate oxidase	EC:1.5.3.1 EC:1.5.3.7	Peroxisome	ko04146	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB3977974.1 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

13TPM > 0

4Conditions

13.4Max TPM

1.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	5	2.41	13.41
apical branchlet · Temperature treatment at T0	6	4	0.40	1.18
apical branchlet · Temperature treatment at T25	5	3	1.02	3.14
apical branchlet · Control at T0	4	1	0.01	0.05

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	13.41
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.62
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.24
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.11
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.10
SRR19977439	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	1.18
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.00
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.15
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.05
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
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	3.14
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	1.12
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.84
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	0.05
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.