Variant report

Variant	rs10898257
Chromosome Location	chr11:84255321-84255322
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	chr11:84252863..84255675-chr11:84267992..84270497,2	MCF-7	breast:

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10792760	0.81[CEU][hapmap];0.87[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap]
rs10792765	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10898248	0.81[CEU][hapmap];0.87[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs10898249	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs10898250	0.87[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap]
rs10898251	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs10898260	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10898263	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs10898264	0.81[CHB][hapmap]
rs10898273	0.87[CHB][hapmap]
rs10898274	0.87[CHB][hapmap];0.94[CHD][hapmap]
rs10898275	0.87[CHB][hapmap]
rs10898278	0.87[CHB][hapmap]
rs10898281	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs11234056	0.81[CEU][hapmap];0.86[CHB][hapmap];0.84[JPT][hapmap]
rs11234057	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs11234060	0.81[CEU][hapmap];0.87[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap]
rs11234063	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs11234064	0.87[CHB][hapmap]
rs11234066	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11234067	1.00[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11234068	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11234070	0.91[CEU][hapmap];0.93[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11234073	0.81[CHB][hapmap]
rs11234076	0.86[CHB][hapmap]
rs11234095	0.93[CHB][hapmap];0.94[CHD][hapmap]
rs11234110	0.86[CHB][hapmap];1.00[YRI][hapmap]
rs11234111	0.81[CHB][hapmap];1.00[YRI][hapmap]
rs12363164	1.00[YRI][hapmap]
rs12365964	0.81[CHB][hapmap];1.00[YRI][hapmap]
rs12575888	0.91[CEU][hapmap];0.87[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1367535	0.93[ASN][1000 genomes]
rs17206044	1.00[YRI][hapmap]
rs1940067	0.93[CHB][hapmap]
rs1940073	0.86[CHB][hapmap];0.80[ASN][1000 genomes]
rs1940085	0.93[CHB][hapmap]
rs1940096	0.81[CHB][hapmap];1.00[YRI][hapmap]
rs4084390	1.00[CHB][hapmap];0.85[JPT][hapmap];0.90[ASN][1000 genomes]
rs6592185	0.87[CHB][hapmap]
rs6592194	0.87[CHB][hapmap]
rs7119480	0.87[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap];0.84[ASN][1000 genomes]
rs7123506	0.87[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap]
rs7127761	0.93[CHB][hapmap]
rs7128948	0.87[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7937583	0.93[CHB][hapmap]
rs7940159	1.00[CEU][hapmap];0.87[CHB][hapmap];0.85[JPT][hapmap];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7951686	0.93[CHB][hapmap]
rs948141	0.81[CHB][hapmap]
rs948142	0.81[CHB][hapmap]
rs9645693	0.87[CHB][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948410	chr11:83918339-84812001	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1038641	chr11:83996453-84334045	Weak transcription Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv541103	chr11:83996453-84334045	Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv898031	chr11:84060342-84379671	Flanking Active TSS Bivalent Enhancer Active TSS Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1041755	chr11:84067493-84315623	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv541104	chr11:84067493-84315623	Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv817504	chr11:84070883-84301151	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv1052925	chr11:84092727-84274689	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1050876	chr11:84128705-84262927	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv541105	chr11:84128705-84262927	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv1047875	chr11:84150376-84380393	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	nsv917176	chr11:84157998-84419488	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
13	nsv1047342	chr11:84187214-84380393	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
14	nsv1045974	chr11:84187214-84708462	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
15	nsv555611	chr11:84190182-84284521	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
16	nsv1040419	chr11:84194827-84287575	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
17	nsv519456	chr11:84198908-84255321	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv1035566	chr11:84203688-84340842	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
19	nsv555612	chr11:84222437-84415122	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
20	nsv555613	chr11:84244769-84274481	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
21	nsv975208	chr11:84255029-84259079	Weak transcription Flanking Active TSS Enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:84252200-84256800	Enhancers	Fetal Brain Male	brain
2	chr11:84252400-84256600	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr11:84252400-84256600	Enhancers	Brain Germinal Matrix	brain
4	chr11:84253200-84263800	Weak transcription	Psoas Muscle	Psoas
5	chr11:84253400-84255600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr11:84254000-84255400	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
7	chr11:84254000-84255400	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
8	chr11:84254000-84256000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr11:84254200-84255800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr11:84254200-84256000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr11:84254400-84255400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
12	chr11:84254400-84255400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr11:84254400-84256000	Enhancers	Brain Anterior Caudate	brain
14	chr11:84254600-84255400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr11:84254600-84255600	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr11:84254800-84255600	Enhancers	Brain Hippocampus Middle	brain
17	chr11:84254800-84260000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr11:84254800-84269400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr11:84255000-84255400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr11:84255000-84255800	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr11:84255000-84255800	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr11:84255000-84256600	Enhancers	Fetal Brain Female	brain
23	chr11:84255000-84257600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr11:84255200-84255400	Enhancers	Brain Angular Gyrus	brain
25	chr11:84255200-84256200	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr11:84255200-84256400	Enhancers	H9 Cell Line	embryonic stem cell

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