Gene detail

Detailed information of XP_048583045.1 in Nematostella vectensis

Genomic Location: NC_064034.1:20007428...20021641
NR annotation: XP_048583045.1, NCK-interacting protein with SH3 domain [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_048727088.1

tgtggtttgggttacctgtggctGGGAAATTCAAAATGGTGGCAAGATTTCATTCCGTTTGACCGCATTCCTGTGATTTTTATGAATGAAACTCAAATCCAGGGAGAGAGATGTATCGCAGTATTTATAACTACACAGCTACTGAAAAGGGCTGTTTGAGCCTAAAAGTTGGCCAGCTACTCATGTTTCTTGAGCAACATGACGCGAACTGGTGGAGAATGCAGTCAGAGAGTGGAGCTGTCGGCCTCGTTCCGTCCTGTTATCTTGAGCCAGACGTGAAAGAAATGCAAGACCCAGCTGCCAGGAGAGTTGTTATGGAGTCGATAGAGAGGGCAATAGATGTTATCCATAGTCAAGCAGCCATGAATTCAGGCAAATATACTCCAGAGCAGAAGGCAAATCTCAAAAAACTACTAGATCATCGCAAGGCTATTCTGTCTGAGGCAAAATCACCTGGAATTCGAGCGTCATCTTCTAAGCGTCAGGCTCCCTCCAAACCTGGGAATGCACCGATACACCCACATCGTCCAGCTCCATCATTACCTGGTATGAGTACCAAGgaatcatcaccattaccaggCTACGACAGAAAGAGATCTCCCAGGAGAGAAGCACCTTGTGTACCAAAAACTAAGAGTGTTTCTCCAGaaaaGAATTTTGATGAACCACTTCCTGCGCGATTTGCAGCAGATTTACTAGAGCAATTAAGAATTAACACTGGCATTAGCTATGACACGTCATTTGCGGCAGCGGAAACAGTGATCAGCCATATCAGGGAAAAGGTCCCAAGCACTGCAGGTCTGATGGGGAGAATGTTACAGGAGCTATGGGCAGAACAgGGTACTTCAGACCACTCAGATGAGAGTCTACTAATTACACACGATGGGCAGGGGATTGAAAACATCTTGAGAGCGCTGACGGAACACAAGGATGATGCACAGCAACGAAGCTGGGCTCTCGACATGGATGAGCCAATCATCACAAAACAGCTGAATGATCTGCTAACGCTACTGTCGGACGCCCGCCGCAGTGTATCACGTGCTGTCATTCGTCAGGAGGAGTATGGACACCTGGAATCGCTGGTGGTGTATTTTCAAATGGAGCACAGGAGATCCCTTCGCCTGTTGTTGCTGAAGGTGTTTGGTAGCCTGTGCCGTGTTGACCAGGGCGTCATACCCGAGTTGCTGTGCTCTGTGTTGCCTGGTGAGCTCGCAAGTTCAATGCAGACCTACCCGGATGATCTGGAACTTCAGCTGAGCTGCTGTCTAATCCTGACCATGATCTTCTCGACTGCGGAACCTGTGCCATATTGGCTTTACGATCAGCTGGACTCGGACTTCGTGAATTACGTGGTACAGTGCGTGGAAGAAGCCCCTGAAGGCGAAGACGGGGACAAGATTATCGAGTCTTTTGTGCATCTTCTACTTGCATTCAATCAGCATTTCACTGATCCTAAAACCAATATTGTGATGAACGTGCTGTCTGAGCTCTACTCTGCCAAGACTGTCAGCGAACAACTGATGCTTCTGGTCAACAGAGAAGAGGACCCGGTTGTTATGTTCGACTATCCCAAATCGTGCGCAAACTCGGTCTTCAAGATCTTCACCGATCTTTTCTCGTCACCCAGTACCTCGGGACTTTTCTTCACGGCGGATATGAAAGTTCTTATCGAAATTGTCCTCAGGCAGCTCACTGATCTGTCGCCTGGAGAGAAGGTCCGTACGGAGTACCTCGCCCTGCTTGAGTTAATGCTCACCAACTCTGACTACGGCAGTCACCAGCATATGTGTTCAGACCTCAGGGCTTGCCTGCAGAGAATACGCGATGAAGAGGCGCCCGAGAGCCAACAGGACAAGACGATAGTCAAGAATATACTGGACAAGTTCCCCCAGTACTTTAGCTAGCATATCCATCACTCATCGGGCCAGGACGATAGTCAAGAATATACTGGACAAGTTCCCCCAGTACTTAGGCGTACAAGGCGATAGTCAATAATATACTTGACAAGTCCCCCAGTACTTAAGCATACAAGGCGATAGTCAATAATATACTTGACAAGTCCCCCAGTACTTAGGCGTACAAGGCGATAGTCAATAATATACTTGACAAGTCCCCCAGTACTTAGGCGTACAAGGCGATAGTCAATAATATACTTGACAAGTCCCCCAGTACTTAGGCGTACAAGGCGATAGTCAATAATATACTTGACAAGTTCCCCCAGTACTTAGGCGTACAAGGCGATAGTCAATAATATACTTGACAAGTTCCCCCAGTACTAAGGCGTACAAGGCGATAGTCAATAATATACTTGACAAGTCCCCCAGTACTTAGGCGTACAAGGCGATAGTCAATAATATACTTGACAAGTCCCCCAGTACTTAGGCGTATAAGGCGATAGTCAATAATATACTTGACAAGTCCCCCAGTACTTAGGCGTACAAGGTGATAGCCAagaatacacctatttcaattaaggtaATCAGTGCAGATGGCAAATgccgattggcaaatggcagttctacgaccgaaagtaacaATGCGTCTCTAAGAAtcaatcaaaacaatattatccgttaaa

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9ESJ4	NCK-interacting protein with SH3 domain OS=Mus musculus OX=10090 GN=Nckipsd PE=1 SV=2
Q9NZQ3	NCK-interacting protein with SH3 domain OS=Homo sapiens OX=9606 GN=NCKIPSD PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005850 (this species only)
Ubiquitin family	UBD\|Other\|SH3 · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00018 all species →	SH3_1	SH3 domain	Domain	Interproscan
PF09431 all species →	SPIN90_LRD	SPIN90/Ldb17, leucine-rich domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001452 all species →	Domain	SH3 domain	Interproscan
IPR036028 all species →	Homologous_superfamily	SH3-like domain superfamily	Interproscan
IPR030125 all species →	Family	SPIN90/Ldb17	Interproscan
IPR018556 all species →	Domain	SPIN90/Ldb17, leucine-rich domain	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13357 all species →	SH3 ADAPTER PROTEIN SPIN90 NCK INTERACTING PROTEIN WITH SH3 DOMAIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0006897 all species →	Biological Process	endocytosis	Interproscan
GO:0071933 all species →	Molecular Function	Arp2/3 complex 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_048583045.1.

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

Expression pattern (RNA-seq)

Transcript abundance of XP_048583045.1 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

37TPM > 0

16Conditions

7.3Max TPM

3.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	4.43	5.23
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	3.75	5.13
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	2.92	3.27
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	2.78	3.39
whole 6 week old aboral regenerate · regenerate uncut	3	3	3.20	3.61
whole 6 week old aboral regenerate · regenerate 4hpa	3	1	1.19	3.58
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	2.63	4.01
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	4.67	6.37
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	2.67	4.82
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	2.37	3.83
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	3.68	3.90
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	2.99	4.74
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	5.25	7.29
whole 6 week old aboral regenerate · regenerate 48hpa	3	1	1.93	5.79
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	3.53	6.07
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	1.24	3.73

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	5.23
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	4.68
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	3.37
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	5.13
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	3.48
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	2.65
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	3.27
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	3.02
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	2.45
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	3.39
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	2.71
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	2.24
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	3.61
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	3.03
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	2.97
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	3.58
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	4.01
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	3.88
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	6.37
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	4.23
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	3.41
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	4.82
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	3.19
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	3.83
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	3.29
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	0.00
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	3.90
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	3.65
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	3.50
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	4.74
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	4.24
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	7.29
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	4.94
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	3.53
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	5.79
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
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	6.07
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	4.51
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	3.73
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.