Variant report

Variant	rs7676941
Chromosome Location	chr4:173760563-173760564
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10001933	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10866366	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11132954	0.92[CEU][hapmap]
rs11132959	0.92[CEU][hapmap]
rs11944071	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12499757	0.94[JPT][hapmap]
rs1459157	0.81[JPT][hapmap]
rs1540466	0.92[CEU][hapmap]
rs17058951	0.84[GIH][hapmap]
rs4569731	0.92[CEU][hapmap]
rs4696029	1.00[CEU][hapmap];0.83[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4696030	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4696031	0.91[CEU][hapmap];0.83[CHB][hapmap];0.94[JPT][hapmap];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62340297	0.91[EUR][1000 genomes]
rs6841423	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7654998	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7681059	0.92[ASW][hapmap];1.00[CEU][hapmap];0.83[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.93[YRI][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9997117	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948856	chr4:173388217-173967546	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv949126	chr4:173466221-174051451	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv3327952	chr4:173591786-173805861	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv968039	chr4:173753530-173772714	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	n/a
5	nsv881394	chr4:173757115-173847405	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7676941	NBLA00301	cis	parietal	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:173747600-173765600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr4:173759400-173762200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr4:173759400-173762400	Enhancers	Primary hematopoietic stem cells	blood
4	chr4:173759400-173764000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr4:173760200-173762200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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