Gene detail

Detailed information of XP_048588552.1 in Nematostella vectensis

Genomic Location: NC_064042.1:867912...874877
NR annotation: XP_048588552.1, chordin-like protein 1 isoform X1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_048732595.1

CCACGCTTGGACCTGCCGAGGGGTCAACTGTCTCAAACGTCCTCGTGCGTTACAATAAGCCAAAAGCCCTACTCAAAGCCACTCAAACAATTATGCTCATCTGAGCTTCAAGGGTTTGGAAACAGGAACACAGTAGAAGACCACAGAATCACAGCTCTTTCCTGAGCAGTTGTGTAGTCGGGTGAAGGCGCATCGAAACGCAGATTTTGCGGCCAAAAacgcgtttttttttagaatttcaACATGATTCTTAGATGCTTCGCGCACATATTTTGTATATTTCTGCTGACCAGTGTGTCTCAACCACTCTTACTCGGCGCACCACGAAGGCCAAGAAAACCTTCCATTCCTCCCGCCACACACTGCATGTCGGGTAAAGTGAAGTACAGCATCTCCCAGTCCTGGTACCCAGTCCTCATCCCATGCGGATATGTCGAGTGCATCAAGTGCTCCTGCAAACTGGAAGGAAATGCTGCCAAGGTGGTATGTAACAACTTATATGGCTCTTGTCCGGGCGGCTACCTCAAGCCAGGGGACTGCTGTAGAACCTGCCCAGGATTATCGCGGCCGGTCAAGCGTTCAACAGACAGATCCTGCACCTTGAAAAACAGAGAACATTCGCACGGAAGTGTCTGGAAGGTTGACCCTAGCAACGCCGCTGACCTAGACCCCAATCAGTGCACGGAATGTAGCTGCTGGGACGGATTCGTATCGTGTGCAATCCGGACATGTCCAAAACCTGTGTGTAGTAACCCAGTGTCGTCACTGACATCTTGCTGTCCGGTCTGTCCAGAGCGACCGATGGCTCAGCCAAAGACAGCAGGCTGTTCGTCGCTCGGCCCTCTCGGCATGCCGTCGGCTTGTCGCTGTTCGTCGCTCGGCCGGGGGTACAAGGAAGGCGAAACTTGGCATCCAATGCTTCAGCCCTACAGAACTAAATGCATTCTCTGCACCTGCAAGAACTCTGTTGTCCGCTGTGACAAAGTCAAATGCGAAGATGGGGCGAACTGTAATCCACGATGTTGTACATGCACGGCGCCAACTATATCAAAACAGACGCCGGCCCTTGCgacccttccccccacccctcccctggccgAGTTTCCTGATTGTTACTTCAGCGGTCACGGGGTTCGACGTCACAATTCAAGCTGGATACCAACCATCGCGGGCATCTCATCGAATTGCTTCGAGTGCACATGTCTGAACTCGGAAGTCCGCTGCGAAAAGATCATCTGTCCCAAGTCCTATTCGTGCCAAGACCCCGTCAACATCCCGGGAAAATGTTGCAAAGTTTGCAGAGGAATGGCAAACAGGGTCCAGTCTGTTCGGTTGGGGAGGAGGCGAAGACTTTGCGGATTAGGGAAGACGAGGTGGCTTGTGTACAATTTCACATCGACGCTCGAGCCAAATTCAGATCCAAATCAAGCGAGCGGTCAGTTTGCTTTGGAAGAAATCGCGCCTATTTCCCCGAGGGTGGAGCTGCACCTGCTGGCGGGTAATCGCACACACTTGAGTGTGGTGATCGATGTGATGGACAGAACAAGGTTCGAAAAATGGGTGAACGAGAGCGAGGCAAGAAAAAGTCAGAGACCTATCGGAGTGTTACGAGAAGGGCGACGGAAGAAGATCAAGGAGAAAGAGCAAGCTAAGTGCGTCCTCAACTGCCACCTGCGCGTGCGCCAGCTCATGGATGTACTAGGCAAGCGCAGTAGGTCGTGTCGGCCCCCAGTCACTCTCACGGCGCTCAAAGAGGGTCTCTGATGGCCAAGCAATTTATGGACTCAAAGAGTGTTGCAGAAAGACTATTGACCTAAAGAGTGTTGCTGAAAGACAAACTGTGGTGAATGGGGCTTGTCATAGCTTAGCTCACACGCACCGAAAAGCTGAGAGTTTGGGACTCCGAATGTAGATAGAGTACAAGCCTGTCTCGCGTCTTTTGTAGTTGTCAGTATCCTAGCAACAGTGGTGCAAGTAAAAACTATTGGTATTGGCTGTACTTTCATGTAGATTATTCACGAAAAAGTGTCATTCTTAAATTATGTGTTTAAAGTAGTATTTATCCTAGTTGAGATATTTGTATTTCACAGATTACAAAATTTATTCCTGTGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9IBG7	Kielin/chordin-like protein OS=Xenopus laevis OX=8355 GN=kcp PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004753 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00093 all species →	VWC	von Willebrand factor type C domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001007 all species →	Domain	VWFC domain	Interproscan
IPR045717 all species →	Family	Chordin-like protein 1/2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46303 all species →	VWFC DOMAIN-CONTAINING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005615 all species →	Cellular Component	extracellular space	Interproscan
GO:0030154 all species →	Biological Process	cell differentiation	Interproscan
GO:0030514 all species →	Biological Process	negative regulation of BMP signaling pathway	Interproscan
GO:0036122 all species →	Molecular Function	BMP 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

No KEGG orthology assignment for XP_048588552.1.

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

Expression pattern (RNA-seq)

Transcript abundance of XP_048588552.1 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

28TPM > 0

16Conditions

3.2Max TPM

0.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	1	0.28	0.85
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	0.98	1.38
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	0.78	0.86
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	0.74	0.99
whole 6 week old aboral regenerate · regenerate uncut	3	3	2.85	3.16
whole 6 week old aboral regenerate · regenerate 4hpa	3	1	0.23	0.70
whole 6 week old aboral regenerate · regenerate 120hpa	3	1	0.39	1.17
whole 6 week old aboral regenerate · regenerate 36hpa	3	2	0.41	0.91
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	0.39	0.67
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	0.50	0.99
whole 6 week old aboral regenerate · regenerate 16hpa	3	2	0.56	1.00
whole 6 week old aboral regenerate · regenerate 72hpa	3	1	0.10	0.31
whole 6 week old aboral regenerate · regenerate 60hpa	3	1	0.11	0.32
whole 6 week old aboral regenerate · regenerate 48hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	0.43	0.83
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	0.17	0.51

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	0.85
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	0.00
SRR6320863	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	1.38
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	0.82
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	0.75
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	0.86
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	0.83
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	0.66
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	0.99
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	0.79
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	0.43
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	3.16
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	3.15
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	2.25
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.70
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	1.17
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320883	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	0.91
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	0.32
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	0.00
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.67
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.50
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	0.99
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	0.52
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	0.00
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	1.00
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	0.69
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	0.00
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.31
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	0.32
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	0.00
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	0.00
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320870	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
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	0.83
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	0.46
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	0.51
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.