Variant report

Variant	rs1953322
Chromosome Location	chr10:28550759-28550760
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:28543012..28546500-chr10:28550223..28554148,7	MCF-7	breast:
2	chr10:28550629..28558294-chr10:28588558..28593348,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150054	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10763654	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10763655	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10763658	0.84[ASN][1000 genomes]
rs10826433	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10826435	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10826436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006946	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11006956	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11006957	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11006959	0.91[ASN][1000 genomes]
rs11006962	0.86[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs11006965	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11006970	0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs1148175	0.83[ASN][1000 genomes]
rs1418757	0.86[ASN][1000 genomes]
rs1418759	0.88[ASN][1000 genomes]
rs17758855	0.86[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs1870097	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1870098	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1953324	0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2085471	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2100615	0.86[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs2100616	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2290701	0.86[ASN][1000 genomes]
rs61845911	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6481515	0.86[ASN][1000 genomes]
rs7072480	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7088465	0.86[ASN][1000 genomes]
rs9919516	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv525448	chr10:28337570-28563732	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv1041555	chr10:28419399-29304934	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv1037863	chr10:28419399-29378871	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
5	nsv540521	chr10:28419399-29378871	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28519000-28552000	Weak transcription	Fetal Stomach	stomach
2	chr10:28535800-28551600	Weak transcription	Fetal Intestine Small	intestine
3	chr10:28537400-28552600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr10:28537600-28552600	Weak transcription	Primary T cells from cord blood	blood
5	chr10:28542400-28552400	Weak transcription	Psoas Muscle	Psoas
6	chr10:28544000-28552200	Weak transcription	Fetal Heart	heart
7	chr10:28544000-28555600	Weak transcription	Primary hematopoietic stem cells	blood
8	chr10:28544200-28552400	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr10:28544200-28554600	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr10:28546200-28552400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr10:28549200-28550800	Enhancers	Stomach Smooth Muscle	stomach
12	chr10:28549400-28550800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
13	chr10:28549400-28551400	Enhancers	Primary T helper cells fromperipheralblood	blood
14	chr10:28549400-28551600	Enhancers	Primary B cells from peripheral blood	blood
15	chr10:28549600-28552600	Weak transcription	Right Ventricle	heart
16	chr10:28550000-28552200	Enhancers	HepG2	liver
17	chr10:28550200-28550800	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr10:28550400-28552200	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr10:28550400-28553600	Weak transcription	Primary B cells from cord blood	blood
20	chr10:28550400-28555600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr10:28550400-28582600	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr10:28550600-28551400	Weak transcription	Colon Smooth Muscle	Colon
23	chr10:28550600-28551600	Weak transcription	Pancreas	Pancrea
24	chr10:28550600-28551800	Weak transcription	Aorta	Aorta
25	chr10:28550600-28552200	Weak transcription	Rectal Smooth Muscle	rectum
26	chr10:28550600-28562400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr10:28550600-28562600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr10:28550600-28563600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

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