Variant report

Variant	rs132556
Chromosome Location	chr22:29334600-29334601
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr22:29326669..29328681-chr22:29332025..29335341,3	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs132530	1.00[JPT][hapmap]
rs132535	0.90[ASN][1000 genomes]
rs132541	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs132546	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs132547	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.92[TSI][hapmap];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs132550	0.85[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs132551	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs132554	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16986909	0.82[CHB][hapmap]
rs469988	0.82[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs5752844	0.83[ASN][1000 genomes]
rs5762916	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs5762924	0.87[CEU][hapmap];0.82[CHB][hapmap];0.86[TSI][hapmap]
rs5762935	0.87[CEU][hapmap];0.82[CHB][hapmap]
rs713892	1.00[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap];0.83[YRI][hapmap];0.84[EUR][1000 genomes]
rs739197	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1064079	chr22:29065528-29456059	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
2	nsv531586	chr22:29252132-29902266	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised 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:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:29314400-29342800	Weak transcription	Brain Substantia Nigra	brain
2	chr22:29321000-29339600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr22:29322000-29336600	Weak transcription	NHEK	skin
4	chr22:29324000-29335400	Weak transcription	Colon Smooth Muscle	Colon
5	chr22:29326600-29336000	Weak transcription	Rectal Smooth Muscle	rectum
6	chr22:29328200-29335000	Weak transcription	Small Intestine	intestine
7	chr22:29328200-29338000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr22:29329400-29339000	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr22:29329800-29338800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr22:29330200-29335200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr22:29330200-29335400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr22:29330200-29335400	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr22:29330200-29335400	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr22:29330200-29335400	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr22:29330400-29335200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr22:29330400-29335600	Weak transcription	Fetal Lung	lung
17	chr22:29330400-29336400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr22:29330400-29336600	Weak transcription	A549	lung
19	chr22:29331000-29334800	Genic enhancers	HepG2	liver
20	chr22:29331200-29335600	Weak transcription	Liver	Liver
21	chr22:29331400-29334800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr22:29331400-29335000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr22:29331400-29338800	Weak transcription	Fetal Muscle Leg	muscle
24	chr22:29331400-29339200	Weak transcription	Stomach Smooth Muscle	stomach
25	chr22:29331400-29339400	Weak transcription	Right Atrium	heart
26	chr22:29331400-29341000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr22:29331600-29336000	Weak transcription	Fetal Intestine Small	intestine
28	chr22:29331600-29339000	Weak transcription	Brain Cingulate Gyrus	brain
29	chr22:29331600-29339200	Weak transcription	Pancreas	Pancrea
30	chr22:29331600-29339200	Weak transcription	Psoas Muscle	Psoas
31	chr22:29331800-29335400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr22:29332000-29343000	Weak transcription	Brain Angular Gyrus	brain
33	chr22:29332600-29334600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr22:29332600-29334800	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr22:29332600-29335000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr22:29332600-29335400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr22:29332600-29336000	Weak transcription	Ovary	ovary
38	chr22:29332600-29338200	Weak transcription	Brain Anterior Caudate	brain
39	chr22:29332600-29339600	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr22:29332600-29347600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr22:29333400-29338200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr22:29333600-29334800	Enhancers	HUVEC	blood vessel
43	chr22:29333600-29335400	Weak transcription	Cortex derived primary cultured neurospheres	brain
44	chr22:29333800-29334800	Enhancers	Duodenum Mucosa	Duodenum
45	chr22:29333800-29335000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr22:29333800-29335600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr22:29333800-29336200	Weak transcription	Fetal Kidney	kidney
48	chr22:29333800-29338400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr22:29333800-29338600	Weak transcription	Aorta	Aorta
50	chr22:29333800-29339200	Weak transcription	Lung	lung

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