Variant report

Variant	rs10239251
Chromosome Location	chr7:104088583-104088584
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:104076045..104077944-chr7:104087958..104090019,2	K562	blood:

Extended variants
information (count: 38 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10232719	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10248554	0.96[EUR][1000 genomes]
rs10248577	0.94[EUR][1000 genomes]
rs10248586	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10248725	1.00[CEU][hapmap];0.95[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10248853	1.00[CEU][hapmap];0.95[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10252016	1.00[CEU][hapmap];0.89[CHB][hapmap];0.91[JPT][hapmap];0.93[YRI][hapmap]
rs10253179	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10258646	0.96[EUR][1000 genomes]
rs10263143	1.00[CEU][hapmap];0.89[CHB][hapmap];0.91[JPT][hapmap]
rs10267229	1.00[EUR][1000 genomes]
rs10267467	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10268222	1.00[CEU][hapmap];0.95[GIH][hapmap];0.82[MEX][hapmap];0.90[TSI][hapmap]
rs10278196	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10279103	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11763095	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11768543	1.00[CEU][hapmap];0.89[CHB][hapmap];0.91[JPT][hapmap]
rs11768629	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap]
rs12112342	1.00[CEU][hapmap]
rs12705211	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12705212	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12705213	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12705217	1.00[CEU][hapmap];0.89[CHB][hapmap];0.91[JPT][hapmap];0.81[YRI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13223335	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13224554	1.00[CEU][hapmap]
rs17137518	0.89[ASW][hapmap]
rs17137665	0.81[CHD][hapmap]
rs1858780	1.00[CEU][hapmap];0.95[GIH][hapmap];0.91[TSI][hapmap]
rs28504445	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28590508	0.81[ASN][1000 genomes]
rs41389845	0.89[ASW][hapmap]
rs42181	0.81[CHD][hapmap];0.81[YRI][hapmap]
rs6977154	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7796342	1.00[CEU][hapmap]
rs7806966	1.00[CEU][hapmap];0.95[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7807089	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7811730	1.00[CEU][hapmap];0.95[GIH][hapmap];0.95[TSI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv888925	chr7:104047599-104170560	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10239251	KCNJ3	trans	parietal	SCAN
rs10239251	LRCH4	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:104084600-104092800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr7:104086800-104089600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

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