Variant report

Variant	rs10928108
Chromosome Location	chr2:142249954-142249955
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	chr2:142248367..142251172-chr2:142262537..142266743,4	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10496883	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10928107	0.84[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12691612	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16846150	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16846186	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16846257	1.00[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17549958	1.00[EUR][1000 genomes]
rs17615422	1.00[EUR][1000 genomes]
rs3884569	0.88[EUR][1000 genomes]
rs4254452	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4261672	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4277467	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4369801	1.00[EUR][1000 genomes]
rs4375803	0.84[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4387729	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4402694	0.82[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4429408	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4461205	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4954911	1.00[CEU][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60388182	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61221994	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6429895	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6429897	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72989056	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72989081	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7571511	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817518	chr2:141714174-142287302	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv583203	chr2:142055133-142378975	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv875234	chr2:142156180-142254119	Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
4	nsv875240	chr2:142199421-142347455	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
5	nsv875243	chr2:142219033-142259592	Enhancers Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
6	nsv459607	chr2:142226768-142263400	Enhancers Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
7	nsv583207	chr2:142226768-142263400	Enhancers Weak transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
8	nsv459618	chr2:142246988-142263746	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
9	nsv583209	chr2:142246988-142263746	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:142239400-142256400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr2:142247800-142266200	Weak transcription	Brain Anterior Caudate	brain
3	chr2:142248200-142250000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr2:142248200-142250200	Enhancers	Muscle Satellite Cultured Cells	--
5	chr2:142248600-142250000	Enhancers	NH-A	brain
6	chr2:142249200-142251200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr2:142249400-142251400	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr2:142249600-142254800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr2:142249600-142257600	Weak transcription	Brain Substantia Nigra	brain
10	chr2:142249800-142251000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links