Variant report

Variant	rs1923396
Chromosome Location	chr10:4321300-4321301
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:4319961..4321650-chr10:4382785..4384705,2	MCF-7	breast:
2	chr10:4311326..4314084-chr10:4320615..4323215,2	MCF-7	breast:
3	chr10:3824995..3829736-chr10:4319547..4324748,15	MCF-7	breast:
4	chr10:3735102..3736673-chr10:4321276..4322896,2	MCF-7	breast:
5	chr10:4320010..4324018-chr10:4702839..4706546,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000067082	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1022768	0.96[CEU][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10795149	0.86[EUR][1000 genomes]
rs10795150	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10904220	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10904222	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11252425	0.86[EUR][1000 genomes]
rs11252432	0.87[EUR][1000 genomes]
rs11252446	0.81[ASN][1000 genomes]
rs11595086	0.85[EUR][1000 genomes]
rs12766787	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.97[TSI][hapmap];0.86[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1570293	0.89[EUR][1000 genomes]
rs1923395	0.91[CEU][hapmap];0.81[GIH][hapmap];0.82[TSI][hapmap];0.84[EUR][1000 genomes]
rs1923397	0.91[CEU][hapmap];0.81[GIH][hapmap];0.84[TSI][hapmap];0.87[EUR][1000 genomes]
rs2065092	1.00[JPT][hapmap]
rs2181121	0.86[EUR][1000 genomes]
rs2397707	0.84[EUR][1000 genomes]
rs4881310	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4881311	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4881312	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6601827	0.84[EUR][1000 genomes]
rs6601828	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6601829	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6601830	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7069957	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7080263	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7089481	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs7097420	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7896160	0.96[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7898137	0.84[EUR][1000 genomes]
rs7912330	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7919377	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs882601	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[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	esv1799113	chr10:4259123-4332824	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv1800792	chr10:4259123-4332824	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	esv1820112	chr10:4259123-4332824	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	esv1822419	chr10:4259123-4332824	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	esv1839293	chr10:4259123-4332824	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	esv1841782	chr10:4259123-4332824	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	esv2757363	chr10:4286880-4323493	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	esv2759728	chr10:4286880-4323493	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	nsv894785	chr10:4306421-4372629	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4307800-4321400	Weak transcription	Pancreas	Pancrea
2	chr10:4309600-4323000	Weak transcription	Lung	lung
3	chr10:4309600-4324600	Weak transcription	Fetal Muscle Trunk	muscle
4	chr10:4312800-4321600	Weak transcription	NHLF	lung
5	chr10:4313000-4322600	Weak transcription	HMEC	breast
6	chr10:4313600-4321400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr10:4314200-4321600	Weak transcription	Aorta	Aorta
8	chr10:4316200-4323000	Weak transcription	Gastric	stomach
9	chr10:4318400-4321400	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr10:4318800-4323000	Weak transcription	Psoas Muscle	Psoas
11	chr10:4319600-4327600	Enhancers	Fetal Lung	lung
12	chr10:4320400-4322200	Enhancers	HSMMtube	muscle
13	chr10:4320400-4327800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr10:4320400-4327800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr10:4320800-4322600	Enhancers	Duodenum Smooth Muscle	Duodenum
16	chr10:4320800-4322600	Enhancers	Fetal Heart	heart
17	chr10:4320800-4323200	Enhancers	Fetal Stomach	stomach
18	chr10:4320800-4326600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr10:4320800-4327400	Enhancers	Stomach Smooth Muscle	stomach
20	chr10:4321000-4321400	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr10:4321000-4322000	Active TSS	Fetal Brain Male	brain
22	chr10:4321000-4323000	Enhancers	Fetal Muscle Leg	muscle
23	chr10:4321200-4323400	Enhancers	Spleen	Spleen
24	chr10:4321200-4325400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr10:4321200-4325600	Enhancers	Ovary	ovary
26	chr10:4321200-4326200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr10:4321200-4327600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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