Variant report

Variant	rs12524835
Chromosome Location	chr6:33730843-33730844
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:33674794..33680843-chr6:33726905..33731016,6	MCF-7	breast:
2	chr6:33730661..33732317-chr6:33745927..33748398,2	MCF-7	breast:
3	chr6:33684529..33686540-chr6:33729478..33731636,2	MCF-7	breast:
4	chr6:33728564..33732066-chr6:33733725..33737558,5	MCF-7	breast:
5	chr6:33717929..33721430-chr6:33728075..33731260,3	MCF-7	breast:
6	chr6:33679162..33680218-chr6:33729935..33730915,4	K562	blood:
7	chr6:33730312..33733510-chr6:33847562..33850265,3	K562	blood:
8	chr6:33729337..33731009-chr6:33738048..33739817,2	MCF-7	breast:
9	chr6:33684753..33687394-chr6:33728535..33731247,2	MCF-7	breast:
10	chr6:33678876..33680749-chr6:33729962..33732135,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000137288	Chromatin interaction
ENSG00000161904	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1075379	0.90[CHB][hapmap];0.88[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11753083	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11754690	1.00[CHB][hapmap];0.84[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11755593	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11757524	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11758463	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12524768	0.80[CHB][hapmap];0.89[JPT][hapmap];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1887340	1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2281819	0.88[EUR][1000 genomes]
rs2281820	0.90[CHB][hapmap]
rs2395400	0.89[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2894342	0.87[EUR][1000 genomes]
rs3763253	0.87[EUR][1000 genomes]
rs3828783	0.90[CHB][hapmap];0.88[JPT][hapmap];0.83[AMR][1000 genomes]
rs4711346	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55775340	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59137082	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61394483	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61662306	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6910736	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6921487	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6930201	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6933174	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6933568	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6933607	1.00[CHB][hapmap];0.88[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6940353	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72880511	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73412140	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73746509	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs747692	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs747693	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs751096	0.90[CHB][hapmap];0.88[JPT][hapmap];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs755495	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7755323	0.90[CHB][hapmap];0.88[JPT][hapmap];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs943461	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs943462	1.00[CHB][hapmap];0.89[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs943466	0.90[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[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	nsv885772	chr6:33638180-33767727	Bivalent Enhancer Genic enhancers Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases
2	nsv462897	chr6:33717770-33778964	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv602839	chr6:33717770-33778964	Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv462898	chr6:33723383-33768897	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
5	nsv602840	chr6:33723383-33768897	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33715200-33737800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:33723400-33736600	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr6:33726000-33731000	Enhancers	Fetal Stomach	stomach
4	chr6:33726200-33731000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr6:33726200-33731400	Enhancers	Fetal Lung	lung
6	chr6:33726400-33738200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr6:33728000-33731400	Enhancers	Fetal Muscle Leg	muscle
8	chr6:33728000-33732000	Enhancers	Fetal Muscle Trunk	muscle
9	chr6:33728800-33731600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr6:33728800-33731600	Enhancers	Right Ventricle	heart
11	chr6:33729000-33736200	Weak transcription	HSMM	muscle
12	chr6:33729200-33732000	Enhancers	Placenta	Placenta
13	chr6:33729800-33734800	Weak transcription	HSMMtube	muscle
14	chr6:33730000-33731000	Enhancers	Skeletal Muscle Male	skeletal muscle
15	chr6:33730000-33731800	Enhancers	Skeletal Muscle Female	skeletal muscle
16	chr6:33730000-33738600	Weak transcription	A549	lung
17	chr6:33730200-33733200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr6:33730200-33736400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr6:33730200-33737800	Weak transcription	Right Atrium	heart
20	chr6:33730200-33738200	Weak transcription	Colonic Mucosa	Colon
21	chr6:33730200-33738400	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr6:33730600-33731000	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr6:33730600-33731400	Enhancers	Spleen	Spleen
24	chr6:33730600-33731400	Enhancers	Osteobl	bone
25	chr6:33730600-33731800	Weak transcription	Brain Cingulate Gyrus	brain
26	chr6:33730600-33738600	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr6:33730800-33731600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr6:33730800-33732000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr6:33730800-33736000	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr6:33730800-33736600	Weak transcription	Brain Substantia Nigra	brain
31	chr6:33730800-33737600	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr6:33730800-33738600	Weak transcription	Liver	Liver

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