Variant report

Variant	rs2420640
Chromosome Location	chr10:91431298-91431299
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:91426396..91428271-chr10:91428342..91432037,3	MCF-7	breast:
2	chr10:91403479..91406981-chr10:91430382..91435913,4	MCF-7	breast:
3	chr10:91427748..91429967-chr10:91430864..91434039,3	K562	blood:

Variant related genes	Relation type
ENSG00000232936	Chromatin interaction
ENSG00000249962	Chromatin interaction
ENSG00000152782	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10159610	0.92[CEU][hapmap]
rs10430645	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs10430646	0.80[JPT][hapmap]
rs1048057	0.80[GIH][hapmap]
rs10509579	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs1062465	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs10785896	0.80[JPT][hapmap]
rs10881618	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs10881631	0.80[JPT][hapmap]
rs10881666	0.87[GIH][hapmap];0.89[JPT][hapmap]
rs11185841	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11185861	0.80[JPT][hapmap]
rs11185880	0.81[JPT][hapmap]
rs11598411	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11817267	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12250365	0.80[GIH][hapmap]
rs12414170	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12569886	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12570256	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12571525	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12573024	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];0.91[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12573060	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];0.92[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12766537	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1326260	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1409355	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1409358	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs1555868	0.80[JPT][hapmap]
rs1555881	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1555882	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1886997	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs2026550	0.80[JPT][hapmap]
rs2038920	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2077946	0.87[GIH][hapmap]
rs3740037	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs3824609	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs4934493	0.83[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56189305	0.96[EUR][1000 genomes]
rs6586218	0.80[JPT][hapmap]
rs7076259	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs7076351	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7081362	0.80[JPT][hapmap]
rs7085805	0.80[JPT][hapmap]
rs7087240	0.80[JPT][hapmap]
rs7089150	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7089473	0.80[JPT][hapmap]
rs7089645	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7092444	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs7095818	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs7096466	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs7097496	0.80[JPT][hapmap]
rs7098988	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];0.92[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7100603	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs716781	0.80[JPT][hapmap]
rs745215	0.89[EUR][1000 genomes]
rs749607	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7895379	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs7898670	0.80[JPT][hapmap]
rs7905382	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7910615	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7911443	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7912591	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8181361	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs9325443	0.87[GIH][hapmap];0.80[JPT][hapmap]
rs943127	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs962524	0.87[GIH][hapmap];0.80[JPT][hapmap]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs2420640	FGFBP3	cis	cerebellum	SCAN
rs2420640	KIF20B	cis	parietal	SCAN
rs2420640	KIF20B	cis	cerebellum	SCAN
rs2420640	FLJ37201	cis	parietal	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91427800-91431400	Enhancers	HepG2	liver
2	chr10:91428400-91431800	Enhancers	Fetal Muscle Leg	muscle
3	chr10:91430000-91431400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr10:91430000-91431600	Enhancers	HSMMtube	muscle
5	chr10:91430600-91431600	Enhancers	Psoas Muscle	Psoas
6	chr10:91431200-91432800	Weak transcription	Fetal Intestine Small	intestine

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