Variant report

Variant	rs16846262
Chromosome Location	chr2:142250998-142250999
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: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10496883	0.93[YRI][hapmap];0.95[AFR][1000 genomes]
rs16846150	0.84[AFR][1000 genomes]
rs16846186	0.86[YRI][hapmap];0.89[AFR][1000 genomes]
rs16846227	0.93[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846233	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846250	0.93[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846257	0.95[AFR][1000 genomes]
rs16846311	0.93[YRI][hapmap];0.89[AFR][1000 genomes]
rs16846319	0.93[YRI][hapmap];0.93[AFR][1000 genomes]
rs16846333	0.92[YRI][hapmap];0.89[AFR][1000 genomes]
rs16846369	0.93[YRI][hapmap]
rs16846372	0.93[YRI][hapmap]
rs60388182	0.84[AFR][1000 genomes]
rs61221994	0.84[AFR][1000 genomes]
rs72989025	0.84[AFR][1000 genomes]
rs72989033	0.84[AFR][1000 genomes]
rs72989056	0.84[AFR][1000 genomes]
rs72989075	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72989081	0.95[AFR][1000 genomes]
rs72989098	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72989102	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72991023	0.93[AFR][1000 genomes]
rs72992758	0.89[AFR][1000 genomes]
rs72992762	0.85[AFR][1000 genomes]
rs7423788	0.85[YRI][hapmap];0.89[AFR][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:9 , 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	chr2:142249200-142251200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr2:142249400-142251400	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr2:142249600-142254800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr2:142249600-142257600	Weak transcription	Brain Substantia Nigra	brain
7	chr2:142249800-142251000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr2:142250000-142255000	Weak transcription	NH-A	brain
9	chr2:142250200-142254800	Weak transcription	Muscle Satellite Cultured Cells	--

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