Variant report

Variant	rs10863269
Chromosome Location	chr1:216922936-216922937
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	chr1:216913983..216915914-chr1:216921531..216923998,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11117667	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11117668	0.87[CEU][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11117669	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12059942	0.98[ASN][1000 genomes]
rs12070175	0.94[ASW][hapmap];0.94[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12402813	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12403401	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1339350	0.88[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17043436	0.86[CHB][hapmap];0.85[CHD][hapmap]
rs17043466	0.86[CHB][hapmap];0.84[CHD][hapmap]
rs17043570	0.81[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];0.91[TSI][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17043610	0.88[CEU][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2066108	0.86[CHB][hapmap];0.84[CHD][hapmap]
rs2789721	0.86[CHB][hapmap];0.85[CHD][hapmap]
rs2789722	0.85[CHB][hapmap]
rs2789732	1.00[CEU][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2789733	1.00[CEU][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2813666	0.86[CHB][hapmap]
rs2813711	0.86[CHB][hapmap];0.85[CHD][hapmap]
rs2820875	0.94[CEU][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2820876	0.88[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2820881	1.00[CHB][hapmap]
rs2820882	0.86[CHB][hapmap];0.85[CHD][hapmap]
rs2999503	0.86[CHB][hapmap];0.85[CHD][hapmap]
rs2999504	0.82[CHD][hapmap]
rs61318304	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61819764	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61819766	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61819772	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]

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	nsv508694	chr1:216901014-216923883	Enhancers Flanking Active TSS Weak transcription Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10863269	TGFB2	cis	cerebellum	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:216897400-216958600	Weak transcription	Pancreas	Pancrea
2	chr1:216911600-216934200	Weak transcription	Psoas Muscle	Psoas
3	chr1:216914400-216923400	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr1:216921600-216923000	Enhancers	Fetal Stomach	stomach
5	chr1:216921600-216925000	Enhancers	Fetal Heart	heart
6	chr1:216922000-216923000	Enhancers	Fetal Muscle Leg	muscle
7	chr1:216922400-216925400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr1:216922400-216931400	Weak transcription	Right Atrium	heart
9	chr1:216922600-216923000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
10	chr1:216922600-216923800	Enhancers	Brain Anterior Caudate	brain
11	chr1:216922600-216925400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr1:216922800-216924600	Enhancers	Brain Substantia Nigra	brain

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