Variant report

Variant	rs4375803
Chromosome Location	chr2:142248880-142248881
allele	A/C
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: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10496883	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10928107	1.00[ASW][hapmap];1.00[CEU][hapmap];0.87[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10928108	0.84[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12466298	1.00[CEU][hapmap]
rs12691612	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16846150	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16846186	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16846257	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16846362	1.00[MEX][hapmap]
rs17549958	1.00[EUR][1000 genomes]
rs17613427	1.00[CEU][hapmap]
rs17613455	1.00[CEU][hapmap]
rs17615422	1.00[EUR][1000 genomes]
rs3884569	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs4254452	1.00[CEU][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4261672	1.00[CEU][hapmap];0.87[GIH][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4277467	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4340449	0.81[YRI][hapmap]
rs4369801	1.00[EUR][1000 genomes]
rs4387729	1.00[CEU][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4402694	1.00[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4429408	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4461205	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4599051	0.81[YRI][hapmap]
rs4954911	1.00[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]
rs7568338	0.84[ASW][hapmap];1.00[MEX][hapmap]
rs7571511	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7578251	1.00[CEU][hapmap]

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:14 , 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	chr2:142247400-142249600	Enhancers	Brain Angular Gyrus	brain
3	chr2:142247400-142249600	Enhancers	Brain Substantia Nigra	brain
4	chr2:142247800-142249400	Enhancers	Brain Inferior Temporal Lobe	brain
5	chr2:142247800-142249600	Enhancers	Brain Hippocampus Middle	brain
6	chr2:142247800-142266200	Weak transcription	Brain Anterior Caudate	brain
7	chr2:142248000-142249600	Enhancers	Brain Cingulate Gyrus	brain
8	chr2:142248200-142250000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr2:142248200-142250200	Enhancers	Muscle Satellite Cultured Cells	--
10	chr2:142248600-142249000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr2:142248600-142249200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr2:142248600-142249600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr2:142248600-142250000	Enhancers	NH-A	brain
14	chr2:142248800-142249800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links