Variant report

Variant	rs876871
Chromosome Location	chr2:48475799-48475800
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:48475464..48477949-chr2:48504616..48506328,2	K562	blood:
2	chr2:48475740..48478459-chr2:48481350..48483573,2	K562	blood:
3	chr2:48444197..48446382-chr2:48474210..48475992,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000201010	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1112259	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12469811	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12713006	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs13010470	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1396826	0.91[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1546470	0.82[ASN][1000 genomes]
rs1567397	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2175138	0.81[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2348723	0.81[ASN][1000 genomes]
rs2348724	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2882004	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4375916	0.81[ASN][1000 genomes]
rs4953555	1.00[YRI][hapmap]
rs4953561	0.82[AFR][1000 genomes]
rs4953567	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs6545024	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6705995	0.84[ASN][1000 genomes]
rs6742830	0.82[ASN][1000 genomes]
rs6750123	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6751603	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6755968	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs7583634	0.83[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs906857	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009769	chr2:47972642-48509765	Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv535680	chr2:47972642-48509765	Genic enhancers Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv530831	chr2:48059709-48632317	Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
4	nsv519831	chr2:48072855-48566031	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv1003766	chr2:48102244-48559654	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv1005241	chr2:48413134-48493182	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	esv2762552	chr2:48413146-48493182	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv457407	chr2:48414735-48493182	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv581774	chr2:48414735-48493182	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv1001850	chr2:48421389-48492090	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv535681	chr2:48421389-48492090	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:48471000-48476200	Weak transcription	Aorta	Aorta
2	chr2:48473800-48476000	Enhancers	NHDF-Ad	bronchial
3	chr2:48474000-48476000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr2:48474200-48477200	Enhancers	Pancreatic Islets	Pancreatic Islet
5	chr2:48474400-48475800	Weak transcription	Fetal Intestine Small	intestine
6	chr2:48474400-48476000	Weak transcription	Fetal Intestine Large	intestine
7	chr2:48474400-48476800	Enhancers	HepG2	liver
8	chr2:48474800-48476000	Enhancers	HSMMtube	muscle
9	chr2:48474800-48476000	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr2:48474800-48477600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr2:48474800-48477600	Enhancers	Fetal Stomach	stomach
12	chr2:48474800-48479000	Enhancers	GM12878-XiMat	blood
13	chr2:48475000-48476000	Enhancers	NHLF	lung
14	chr2:48475200-48475800	Enhancers	A549	lung
15	chr2:48475200-48476000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr2:48475200-48476000	Enhancers	Muscle Satellite Cultured Cells	--
17	chr2:48475200-48476000	Enhancers	Skeletal Muscle Male	skeletal muscle
18	chr2:48475200-48476000	Enhancers	Osteobl	bone
19	chr2:48475200-48476400	Enhancers	Hela-S3	cervix
20	chr2:48475200-48476600	Enhancers	NHEK	skin
21	chr2:48475200-48477200	Enhancers	HMEC	breast
22	chr2:48475200-48477400	Enhancers	HUVEC	blood vessel
23	chr2:48475400-48476000	Enhancers	HSMM	muscle
24	chr2:48475400-48476000	Enhancers	NH-A	brain
25	chr2:48475400-48476600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr2:48475400-48476800	Enhancers	Liver	Liver
27	chr2:48475400-48476800	Enhancers	Colon Smooth Muscle	Colon
28	chr2:48475400-48476800	Enhancers	Fetal Lung	lung
29	chr2:48475400-48476800	Enhancers	Skeletal Muscle Female	skeletal muscle
30	chr2:48475400-48477000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr2:48475400-48477200	Enhancers	HUES6 Cell Line	embryonic stem cell
32	chr2:48475400-48477400	Enhancers	ES-I3 Cell Line	embryonic stem cell
33	chr2:48475400-48477400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr2:48475400-48477400	Enhancers	HUES64 Cell Line	embryonic stem cell
35	chr2:48475400-48477400	Enhancers	Fetal Heart	heart
36	chr2:48475400-48477400	Enhancers	Placenta Amnion	Placenta Amnion
37	chr2:48475400-48477400	Enhancers	Rectal Smooth Muscle	rectum
38	chr2:48475400-48477400	Enhancers	Right Ventricle	heart
39	chr2:48475400-48478000	Enhancers	Fetal Brain Male	brain
40	chr2:48475400-48478000	Enhancers	Fetal Muscle Leg	muscle
41	chr2:48475400-48478200	Enhancers	Placenta	Placenta
42	chr2:48475400-48487200	Enhancers	Primary monocytes fromperipheralblood	blood
43	chr2:48475600-48475800	Enhancers	Stomach Smooth Muscle	stomach
44	chr2:48475600-48476000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr2:48475600-48476200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr2:48475600-48476200	Weak transcription	Right Atrium	heart
47	chr2:48475600-48476600	Weak transcription	Fetal Muscle Trunk	muscle
48	chr2:48475600-48476800	Weak transcription	Left Ventricle	heart
49	chr2:48475600-48477200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr2:48475600-48477400	Enhancers	HUES48 Cell Line	embryonic stem cell

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