Gene detail

Detailed information of XP_032241199.2 in Nematostella vectensis

Genomic Location: NC_064035.1:2329890...2341132
NR annotation: XP_032241199.2, non-homologous end-joining factor 1 isoform X2 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032385308.2

TAAAGACGGCCagggacacctaaggacggccaggtacacctaagaacggccaaggacacctaagtacggcaaggtacacctaaggacggctaggtacacctaacgACGGTTTGGTACACCTAACCATGGTTAGGTACACCTATGGACGGCCaagtacacctaaggacggccaaggacactcAATGATGCCCAAGTACATCTTAGAACGGCCAAGGACatctaaggacggccaagggcacctaaggacggctaggtacacctaacaCTTAAGAAATGTGGTGTACCCGTAGAAGATATGGTAACTGTATACTGCTCACTAATTCGATCTGTCACTGAATATGCCTCAgtcattttttcaaatattccGTGTTACCTCTCTGAAGCCCTGGAAAAGATCCAGAGGAGAGCACTTAAGATAATTATGCCTGGTTGCCAATACCAGGATGCCCTGCGGCTGTCTGGTCTCCAGACACTAGAGGACCGTAGGCATCTTGCATGTGAGGCCTTTATGAAAAACTTGAATCGCCAGAATCCGCTTTAGCATATAGCAGATAGTAGAAGATCGAGAAAAACTAACTATTACTCGTTAAGACACCAGCAGACGCATAGATTTAAGAAATATCACACTAAACGTTTTTCTGAATTTGTCACTGTTAAATATTCGTATTGTTTGAATTAGTAAATGTTGCGCTTAGCCTGTAATTCAGCTCTCACGCTGCTAAAGGTTAAATAAACATATCTATAGGACGGTTAgatacacctaaggacggccaaggacacctaaggacagccaaggacacctaaggccTGGCCAAGTACACCTAAGGATGGCTCTCTAAGGTTGCCGCCCTCTAAGGTTGCCGGGGTGCAGTTCACTTATATTGTACCTTGAACACACTTTACCGATCATATGTGAAGTACCTACCTACCAAAGCAGCAGAGTTGCAGATGGCTTCGTTAGAGTGTGTTCCTTGGAAATATTTCCACATTCAATACCGCGATTTCGTAGTCAAAAGCTCATTTGGCGACTCAGAATCATCATACGAAATCTATATAAGCGATTTTAAGCGTCTATGGTTTGAAAGAGTAGAAGGGAAGGACTTTCTACACAGGGCCAAGGATGACATTATTGATGACAAGAAACTGGTTCTACGCATGAAGACAAAGCTTCAGGCTGGTGTTCCATTTGTCTGGGAATTCCACTGTACCACAAAGGCTCCAGAACATATCTTCACCCATATCACACACCCATTGCTAGCAATGGTAGCTGAACTGCAGCGAAGAGAACAAGAGCTATGTAGAATGCTGACCAAAAAAGATGCAGAATTAGCTGATTATAAGGATTCAGGATATAAACTCTCCAGAAGAAATCTTGAGACACAGGTTTTCAATGAAGAGGAATTCTGCAAAACAATGCTGCTATCCCCTGGATTTCCTGAGTGTATTTTGCACTCCGCCAGACATTGCTTCTCATTATCAGGGCAAGACCTTTATCAACAGATCATGTCTAAGAAACAATGCTTACAAAGTGCGAAAGAGGAAGCATCAACACATGTCCTAGATGGATCAGAAGATCTTGGTCCTGGAGCTGGTGTTCAGCGCAAATCTCCAGTGAAGTCCCCTAAGAGACCTCTCCCTCCCTCGCCTGATACTTTACACAGTAAGGAGCTGGAGTTGCAGCGACAAGAAGAGCTTAAAAAACGACTAGCTGATGAAGCTGagagaaagaaaaggaaaaagaagaaaatcaaGCTATAGATCTATGAGAAAAGACGGTAAGGAGCCAAGTCACCATGGAAAAACCAGCGCACGGCTACTTGATGGTAGCTCAGCAAATCATTCTGAATTAGTATATAGTATATTGcggttttttttgtattagtGATGACATAACGTTAAAAACAGTTAACAGTCACTTGTACTCTTACAAACTTGTCTATATTTGTTATGCTTATGATGGGGGCCGGTCGGTGCCCATTGGCCGTGCGCATCCACGTCTGCGCATACAAGAAAGCACGTGCGCGCTTGTTTTTCATACGCAATGTCACAAATCAAacggataaaaaaaatttcataGTTGTTAGAAGAAAATAACTTCAAAATATTTCTTCTGCATATTATTCTACAATGCTTGATGTTATCTATGCTATTTAtgacaatgaaaataaaattcacgTTAAAACTGAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6NV18	Non-homologous end-joining factor 1 OS=Danio rerio OX=7955 GN=nhej1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006260 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09302 all species →	XLF	XLF-Cernunnos, XRcc4-like factor, NHEJ component	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015381 all species →	Domain	XLF, N-terminal	Interproscan
IPR038051 all species →	Homologous_superfamily	XRCC4-like, N-terminal domain superfamily	Interproscan
IPR052287 all species →	Family	Non-homologous end-joining factor	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR32235 all species →	NON-HOMOLOGOUS END-JOINING FACTOR 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006302 all species →	Biological Process	double-strand break repair	Interproscan
GO:0006303 all species →	Biological Process	double-strand break repair via nonhomologous end joining	Interproscan
GO:0032807 all species →	Cellular Component	DNA ligase IV complex	Interproscan
GO:0045027 all species →	Molecular Function	DNA end 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
K10980	NHEJ1, XLF; non-homologous end-joining factor 1	-	DNA repair and recombination proteins	ko03400	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_032241199.2 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

36TPM > 0

16Conditions

10.2Max TPM

4.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	2	4.12	7.13
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	5.11	5.93
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	5.59	6.34
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	6.16	6.32
whole 6 week old aboral regenerate · regenerate uncut	3	3	4.69	5.07
whole 6 week old aboral regenerate · regenerate 4hpa	3	1	1.46	4.39
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	3.54	5.33
whole 6 week old aboral regenerate · regenerate 36hpa	3	2	4.38	7.17
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	4.51	7.19
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	4.66	7.28
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	6.26	6.92
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	4.55	7.15
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	6.85	7.36
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	5.77	10.25
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	3.90	5.89
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	2.17	6.52

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	7.13
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	5.22
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	5.93
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	5.15
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	4.26
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	6.34
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	5.29
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	5.13
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	6.32
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	6.08
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	6.07
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	5.07
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	4.61
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	4.38
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	4.39
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
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	5.33
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	5.29
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	7.17
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	5.98
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	0.00
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	7.19
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	6.35
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	7.28
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	6.69
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	6.92
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	6.39
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	5.47
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	7.15
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	6.50
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	7.36
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	7.29
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	5.90
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	10.25
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	7.06
SRR6320868	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	5.89
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	5.80
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	6.52
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.