Variant report

Variant	rs4384204
Chromosome Location	chr1:215411605-215411606
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:215409558..215413015-chr1:215413539..215417993,3	MCF-7	breast:

Extended variants
information (count: 60 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10864168	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11120527	0.94[CEU][hapmap];0.88[CHD][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11120529	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11120543	0.85[EUR][1000 genomes]
rs11589027	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12094438	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12143625	0.83[ASW][hapmap];0.94[CEU][hapmap];0.83[CHD][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12402782	0.88[EUR][1000 genomes]
rs12405930	0.87[EUR][1000 genomes]
rs12406223	0.86[EUR][1000 genomes]
rs12409636	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12409910	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1339397	0.87[EUR][1000 genomes]
rs1339398	0.87[EUR][1000 genomes]
rs1339413	0.95[EUR][1000 genomes]
rs1416658	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1416659	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1538542	0.94[CEU][hapmap];0.95[EUR][1000 genomes]
rs1538548	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17024619	0.87[EUR][1000 genomes]
rs17024624	0.87[EUR][1000 genomes]
rs17024632	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17024638	0.87[EUR][1000 genomes]
rs17024649	0.87[EUR][1000 genomes]
rs17042179	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1981211	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2211125	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2211126	0.87[EUR][1000 genomes]
rs4356021	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4356022	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4372226	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4442346	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4489525	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4512617	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4655401	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4655402	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4655404	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60100666	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60889311	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61819677	0.86[EUR][1000 genomes]
rs61819680	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61819705	0.93[EUR][1000 genomes]
rs61819706	0.93[EUR][1000 genomes]
rs61819707	0.92[EUR][1000 genomes]
rs61819708	0.92[EUR][1000 genomes]
rs61819709	0.92[EUR][1000 genomes]
rs61819710	0.92[EUR][1000 genomes]
rs61819711	0.92[EUR][1000 genomes]
rs61819714	0.87[EUR][1000 genomes]
rs61819715	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61819716	0.87[EUR][1000 genomes]
rs61819717	0.87[EUR][1000 genomes]
rs61819747	0.87[EUR][1000 genomes]
rs61819749	0.90[ASN][1000 genomes]
rs61819752	0.85[EUR][1000 genomes]
rs61819753	0.85[EUR][1000 genomes]
rs6686529	0.94[CEU][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7549184	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873169	chr1:215264486-215453286	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	Chromatin interactive region miRNA target site	n/a	inside rSNPs	diseases
2	nsv873170	chr1:215367248-215440975	Weak transcription Genic enhancers Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region miRNA target site	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4384204	SYT14	cis	parietal	SCAN
rs4384204	ANGEL2	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:215406800-215412800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr1:215406800-215416800	Weak transcription	NHLF	lung
3	chr1:215407800-215413200	Strong transcription	NHDF-Ad	bronchial
4	chr1:215408000-215411800	Strong transcription	Osteobl	bone
5	chr1:215408000-215413600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr1:215409200-215414400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr1:215411400-215412800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links