Variant report

Variant	rs55881709
Chromosome Location	chr3:99633624-99633625
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:99633161..99634866-chr3:99636126..99638471,2	MCF-7	breast:
2	chr3:99627181..99629035-chr3:99632871..99635218,2	MCF-7	breast:
3	chr3:99624361..99628142-chr3:99629982..99633873,3	MCF-7	breast:

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10804762	0.82[EUR][1000 genomes]
rs12486901	0.91[EUR][1000 genomes]
rs12487173	1.00[AFR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12489030	0.91[EUR][1000 genomes]
rs12491153	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs12493124	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12493320	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3732444	0.89[EUR][1000 genomes]
rs3921767	0.89[EUR][1000 genomes]
rs4928152	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs55874130	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs56140081	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs56223679	0.89[EUR][1000 genomes]
rs56335268	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61010376	0.89[EUR][1000 genomes]
rs6789694	1.00[AFR][1000 genomes]
rs6792339	0.91[EUR][1000 genomes]
rs6800456	0.89[EUR][1000 genomes]
rs73150300	1.00[AFR][1000 genomes]
rs73858966	0.89[EUR][1000 genomes]
rs73859911	0.89[EUR][1000 genomes]
rs7632345	0.89[EUR][1000 genomes]
rs7635633	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7635871	0.91[EUR][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	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99600800-99638600	Weak transcription	Left Ventricle	heart
2	chr3:99604600-99648200	Weak transcription	Primary T cells from cord blood	blood
3	chr3:99619600-99644400	Weak transcription	Right Ventricle	heart
4	chr3:99620000-99638600	Weak transcription	Small Intestine	intestine
5	chr3:99621200-99638600	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr3:99625000-99639400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr3:99627200-99638600	Weak transcription	K562	blood
8	chr3:99629000-99639400	Weak transcription	HSMM	muscle
9	chr3:99630000-99634400	Weak transcription	HepG2	liver
10	chr3:99630000-99637600	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr3:99630000-99638200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr3:99630400-99638400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr3:99630600-99638000	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr3:99630600-99638000	Weak transcription	Osteobl	bone
15	chr3:99630600-99638600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr3:99630600-99638600	Weak transcription	Fetal Muscle Leg	muscle
17	chr3:99630600-99638600	Weak transcription	Pancreas	Pancrea
18	chr3:99630600-99638800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr3:99630600-99644600	Weak transcription	NH-A	brain
20	chr3:99630800-99638400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr3:99631200-99634600	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr3:99631200-99638400	Weak transcription	NHEK	skin
23	chr3:99631400-99638400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr3:99631400-99638600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr3:99631800-99639800	Weak transcription	Primary B cells from cord blood	blood
26	chr3:99632200-99635000	Weak transcription	Psoas Muscle	Psoas
27	chr3:99633000-99634000	Enhancers	HUES48 Cell Line	embryonic stem cell
28	chr3:99633400-99638600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr3:99633600-99638400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
30	chr3:99633600-99638600	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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