Gene detail

Detailed information of XP_032222307.2 in Nematostella vectensis

Genomic Location: NC_064035.1:10510287...10517892
NR annotation: XP_001641091.2, probable ATP-dependent RNA helicase DDX59 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032366416.2

aatggctGCATTTATCCCGCGAGTTGTTCAAAGGAAACCCGGGAAAAGCAAGCCAAATATCGCGACAACAAAGACTAGAAAAGGGCCACAAGTGAGCAGCAGTGAAAACAGAGTGCAAATGGTTGACTTGAGGAGTGGAAAAGATAACGTTGATAAGGAAGTTGAGGAACCAAAATGTGAACCTGGTCATGGAAGGAGGGaggacgacgatgatgatgttgatgaagaGGTTGTGTCCTTCAGTAAAAATCAAAGATGGCCGGAATATGGAGAACCAGTCTGTGTTGTATGTGGTAGATATGGTGCTTATGTTTGTGATCAAACTGAACAGGATATTTGTAGTTTAGAGTGTAAAGCTAGGCATCTACGCGATATTGGACAACATCATAACCAAGAAGAGAGTTCAAATGTTTATAACGAGACTGATGAATGTCAGAAAAACGAACGAGACAATTTAATATACACTGATAGCAATTATACATACAAAGAGCATCCAACGATAGCAGCGCTTACAGCGGAACAAGTAAAACAGCTACGGGATAAAATGGAAATCAAGGTGAAAGGTGAACATGTTGTTTCACCTGTACTGGAGTTCTTCCACTGTTCGTTTAATGAAAGTCTCAGTAAAAACTTATCAAATCATGGGTATCATTCACCGACTCCCATTCAAATGCAAGTACTCCCTGTACTCTTAAGTGGCCGTGATGTCATGGTTTGTGCCAGCACTGGGTCTGGTAAGACAGcatcctttttgttaccaatgatatcaagaattCACCACATCACAGGGAAGTTGTTACCAAGTAGTCCTGAAGTAAGATTTATCTATGGATTGATTCTTGCTCCAACAAGGGAATTATGCATGCAGATTGAGAAGCAAACCAAGGAATTTGTACACGGCATGACAAACATGAGAACTGCTCTTTTAATTGGTGGTGTTCCTGTACCCCCCCAGCTCCATAGATTAAAGATGGGTGTGCAAGTTATTGTGGCAACTCCAGGTAGAATGGTTGAGATAATATCTCGTCAGGCTGTTGACCTGACACATGTCATTGGATGCGTGGTGGATGAGGTGGACACAATGCTTCAACTGGGATTTGAACAGCAGGTTCAGCAAATCTTAGAAAGACTAAGTAATAGGAGACAGACCATGCTGTTTTCAGCTACAATCCCTCCCTCCATCGAGGCCATGGCATCTCGATTGCTGAATGCTCCAGTGTTCATATCAGCTGGTTCTCCAAGTTTGCCTACCAAAGCAGTGAAGCAGCTTATTCTCTGGGTTGAAGAAAAGTCCAAGAAAAAACAGCTGTTTTCCATTCTAAAGGACTCCAGGCATTTTAATCCCCCTGCTGTAGTCTTTGTGGAGTCCAAACTTGGTGCTGACATGTTAGCTGAAGCTGTATCCAAGGTATGCCATATAAAGTGCTTGTCCATGCATGGTGACAAACCCCAGGCTGAGAGGGCTCAGATACTGCAAGACTTCCTGGCAGGGGAGTGCCCACTTGTTGTCAGCACCGCTGTGCTCGGTAGAGGTGTCGACCTTCTTAACATCAGACAGGTAATTAACTTCGATATGCCCCCTACATATGAAGAGTATGTGCACCAGATTGGGCGGGCTGGACGGCTTGGGGCTACTGGCTGGTCTATATCCTTTATCAATAATGCCAGCAAAGGGCTCTTCCTTCAGCTGATCAACAAACTTCAGCCTATGGGAGTCAAGCTGCCTGATGAGCTTACCCGGTCTGCGCATGTGCTTGACGAAAGATGCAGAGCAAGCAACAGCAGGAAACGGGCAGAGAAAGATGAGATCGTGAACCAGTCAAACCTGATGGACCTCATTGTCAAGCGCAAGAAGAACAAATAGAGCCTCAAGGCGTTTCGttttgtctcCTAATAGCACGTCTTTGCGTACCGGAAGTGGACCTTTCGCCGTTGTACACACCCTGCATCCCCGCCCCTCCCCCCGGGCCTGTGGAGTTATTTAGGTATACattaatattttggtttagaaAAATTAAACTTGCGAGCTCGTTATAGGTGAACATATAGCGTGCGAATATCGCGTTATACAtaagttcgtttttttttcatggttcACTGACCGTCTAAGCACTTTTCGTGCTTTGCCGACTATAAATTGAGGTGACACACTGTTTGCCTGGCCATACCACCAGCTGGTGAGATACTCAATAAATCAATCATTCCTAATTCTGTCAAAGAAACCTGAcacgattttttttctactttgaAATCGAAACTTTTTTAACACTTTTTTGATTGACAAATATTTATCTTTCCTGTCCTCTGATAGTCCTGGATAAAGCTATGATTATATGACCATATATATAGCTTTTGTTCTTTTGTGCACTTAGCATTTGATTTTTTGCTCAGCAAGGGACGGGATTCAGAAGGGATCTCTGCTTTTCTCATCGGGCTCTAACCAGTGCAGTCCGATAAACATCGCGAAAAAGGAGTATTCTAGCTCTGTCAGagtgtttatttttgtaaaacCCGTGAAAGactttttagtttatttagtacttatacactgtaatgtctttgttctcttttattctggcttgactattacactttaacaattacattttgttccacgggattttgaaaaccactctaccTGTTGTTCTTTCCAAAAAGCATTTCAAAACAATTGATTGTTTGAGCAAATTGgtgtttttatgttattttttacttatttgttTGACGATTCCGAGGTACGTGATAAGGTGTCTTCCTTAAATTAGGGCGCTTCCATAGATGCGATTGAGTGGAAGTGAAATAAAACCCTCCACTTTTCTTAGAAACTCTTACCGTACCGGAGAATATGGAAAAATATGGACTGGCATTTCTCTGCTTAAGCCGTTAACAAATAATTCTGATTACGAGAATACAATAAATTACTGTTTCCATATTTTTGATTTGTCCTTATTTGGTGATtctactaaaaaaaatatttttagtttGAATTCGTTattaacaagtttttttttttgttaaagtgTTGGCGATTGATAAAGAAATGTTCTCCGGTATTTGAAAAAAGTAATAAGAAACTCTACATTTTATCGGTTGGTTCACGGTTTTGTATTTGATTTGTCGTACATTGACGTGCTCAACTACAGGTGAAGTGGAAGCGTGGTGCTTCATCGATATTCAGTATTGTTATTCAAAAAACATTAATTACATGTGTGCACAAAAAGTTACAGCTATGAAACGACAACCAATCACTCGATAccagaataaaaaaacttcatgacTGCCCAAAAAATGACACGCTTTTATGATTCTACTCATCAACTAAGACTGGTTTCCGCTAGGATATCGTCAAAGAGTAAAAACTGTTCTCTAACTTCGCCTGCATCGCTAGctattgaaatatattttttttaataacaagCTATGAAGGTGTTGAGTTTGGtgagtgttttgttttgtgttttggtTAATGAATTGGGGGTGGGGCGATAGAAATCGCGGTTGGAACGTTGTAATTCAAGTGAAGTGATCTCGTCCGCTGGCCTTGTCCCTTCGTAGTCGTGATACAGCCCTCTGCCTCATCTCCTGGGATTCATAGCACTTTAAGACTGACTTTTGGCGGCACGAGGAATCACCGGAATGGCCACCGTTCGTGTGGGGAAATCCACAGGTATGTTTCCGAGCAGctggtcttttttttctttgtctaaGTGCGTTGTTGCCGAAAGGAATGGCTCTTGAGGATCGGCTCAGCCGTGTGATTTGTCAAGTATCAATTTATCTGGCTATAAGTATCTTTCCCAGATTTCTCTTTACTGTTATTCCCCCTCAATTCTTTACCTGGTCATAGCTCTTTGACAACTGTTTCTATAGGCGAGGCATTGTTatcttttgttgttgctttgaATTTCCGTATCATAGCTTACGGTATACATGATTTTTTATTCGTATTATAGCTTTCGCTTTTTCAAATCTTTcctttattcctttttttgagAAATCAATTATTCAAATCTGTATATTTGACCACAATGTCGTAATCCTAAAACGACTTTATTTAAAGTTCCCAATTTTCGTGACGCCACGTGCTAATAGAACAACAGGACTACTGTACTCGAGAGTTGTTGTGCTGCATTTCAAGTATTCCCACTTCACACTTGAAATCTCATTCGTCATCTTCTCGAAAACAACAGAGCGCGCGTCCTTTTAAGACCCCGATAATTCATTTTGTTTACTTTGGattttgaaaaagaaaggAGTATGGCTTAAGAGATGTTAAGTGGTTTCAATTTAATTAAGTCAAGGGGAAGTTTCAATTTGCGCTTCGTCTTCTTATCAGCTGTGTCCCCGGCAGGTTTCAGTGATACCGGAAACAGAGATTTTCCCGCTACAAACgaaattgtgaaaaaaatgaGGAATAGTGCGGGTATGAGTTAGTCCATGAACAGCCAAAGAACACTCGCTTTTACAATaatcttttttagaaaaataggTTAAGAATAGATAGTTCAAGTAtgactaa

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5T1V6	Probable ATP-dependent RNA helicase DDX59 OS=Homo sapiens OX=9606 GN=DDX59 PE=1 SV=1
Q9DBN9	Probable ATP-dependent RNA helicase DDX59 OS=Mus musculus OX=10090 GN=Ddx59 PE=1 SV=1
Q66HG7	Probable ATP-dependent RNA helicase DDX59 OS=Rattus norvegicus OX=10116 GN=Ddx59 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005541 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04438 all species →	zf-HIT	HIT zinc finger	Domain	Interproscan
PF00270 all species →	DEAD	DEAD/DEAH box helicase	Domain	Interproscan
PF00271 all species →	Helicase_C	Helicase conserved C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR007529 all species →	Domain	Zinc finger, HIT-type	Interproscan
IPR014014 all species →	Domain	RNA helicase, DEAD-box type, Q motif	Interproscan
IPR011545 all species →	Domain	DEAD/DEAH box helicase domain	Interproscan
IPR014001 all species →	Domain	Helicase superfamily 1/2, ATP-binding domain	Interproscan
IPR001650 all species →	Domain	Helicase, C-terminal domain-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR47958 all species →	ATP-DEPENDENT RNA HELICASE DBP3	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003724 all species →	Molecular Function	RNA helicase activity	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0005524 all species →	Molecular Function	ATP 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
K19466	DDX59; ATP-dependent RNA helicase DDX59	EC:5.6.2.7	Enzymes with EC numbers	-	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of XP_032222307.2 across 48 RNA-seq samples of Nematostella vectensis. 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.

48Samples

37TPM > 0

16Conditions

7.2Max TPM

3.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	2	3.40	6.49
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	4.15	6.55
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	4.40	5.01
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	3.23	5.00
whole 6 week old aboral regenerate · regenerate uncut	3	3	3.44	4.58
whole 6 week old aboral regenerate · regenerate 4hpa	3	1	0.93	2.79
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	2.84	5.59
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	3.73	5.73
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	2.50	5.38
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	3.99	4.72
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	3.10	4.61
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	3.44	5.50
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	5.69	6.66
whole 6 week old aboral regenerate · regenerate 48hpa	3	1	2.40	7.20
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	3.29	5.28
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	1.65	4.96

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	6.49
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	3.71
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	0.00
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	6.55
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	4.13
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	1.78
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	5.01
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	4.52
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	3.67
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	5.00
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	2.64
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	2.06
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	4.58
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	3.55
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	2.19
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	2.79
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	5.59
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	2.93
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	5.73
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	2.75
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	2.72
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	5.38
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	2.12
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	4.72
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	4.65
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	2.59
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	4.61
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	2.88
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	1.80
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	5.50
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	4.81
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	6.66
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	5.92
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	4.50
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	7.20
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	5.28
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	4.60
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	0.00
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	4.96
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00

Source: CnidoSite RNA-seq expression matrices (NVECT_TPM, StringTie quantification over 48 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.