Variant report

Variant	rs3796461
Chromosome Location	chr4:96112425-96112426
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:96110103..96113264-chr4:96113743..96117396,3	K562	blood:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10026552	0.83[CEU][hapmap];0.89[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12510488	0.89[ASN][1000 genomes]
rs13132800	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1369086	0.88[CHB][hapmap];0.81[JPT][hapmap]
rs1369087	0.82[CHB][hapmap];0.83[JPT][hapmap]
rs1434537	0.83[CHB][hapmap]
rs2289043	0.82[CEU][hapmap];0.84[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3755879	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3755880	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3775057	0.84[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap];0.92[ASN][1000 genomes]
rs3775059	0.82[ASN][1000 genomes]
rs3796459	0.82[CHB][hapmap];0.84[ASN][1000 genomes]
rs3796460	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3796462	0.85[EUR][1000 genomes]
rs3796463	0.87[CEU][hapmap];0.97[EUR][1000 genomes]
rs3796464	0.82[EUR][1000 genomes]
rs6815866	0.82[CHB][hapmap];0.83[JPT][hapmap]
rs767824	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003860	chr4:95507683-96120619	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv869528	chr4:95537649-96368018	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv492312	chr4:95823124-96128327	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv594907	chr4:95975470-96170439	Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:96098000-96127000	Weak transcription	Right Atrium	heart
2	chr4:96100000-96143000	Weak transcription	Fetal Kidney	kidney
3	chr4:96103600-96123000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr4:96104400-96115000	Weak transcription	Aorta	Aorta
5	chr4:96105800-96123200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr4:96108600-96113800	Weak transcription	Fetal Lung	lung
7	chr4:96110600-96112600	Weak transcription	Thymus	Thymus
8	chr4:96110600-96113800	Weak transcription	Primary T cells from cord blood	blood
9	chr4:96110600-96113800	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr4:96110600-96114000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr4:96110600-96114000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr4:96110600-96114400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr4:96110600-96133800	Weak transcription	Gastric	stomach
14	chr4:96110600-96134000	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr4:96111400-96112800	Enhancers	Fetal Thymus	thymus
16	chr4:96111600-96112600	Enhancers	Colon Smooth Muscle	Colon
17	chr4:96111600-96112800	Enhancers	Cortex derived primary cultured neurospheres	brain
18	chr4:96111600-96113200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
19	chr4:96111600-96113400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr4:96111600-96116200	Enhancers	Brain Substantia Nigra	brain
21	chr4:96111600-96116800	Enhancers	Brain Hippocampus Middle	brain
22	chr4:96111800-96112600	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr4:96111800-96112600	Enhancers	Fetal Muscle Leg	muscle
24	chr4:96111800-96112800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr4:96111800-96112800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr4:96111800-96112800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
27	chr4:96111800-96112800	ZNF genes & repeats	Fetal Stomach	stomach
28	chr4:96111800-96113000	Enhancers	Brain Angular Gyrus	brain
29	chr4:96111800-96113000	Enhancers	Brain Inferior Temporal Lobe	brain
30	chr4:96111800-96113000	Bivalent Enhancer	Fetal Brain Female	brain
31	chr4:96111800-96115800	Enhancers	Brain Anterior Caudate	brain
32	chr4:96111800-96116000	Enhancers	Brain Cingulate Gyrus	brain
33	chr4:96112000-96112600	Enhancers	Brain Germinal Matrix	brain
34	chr4:96112000-96112600	Enhancers	K562	blood
35	chr4:96112000-96112800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr4:96112200-96112600	Enhancers	Placenta	Placenta
37	chr4:96112200-96112600	Enhancers	Ovary	ovary
38	chr4:96112200-96112800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr4:96112200-96112800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
40	chr4:96112200-96112800	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr4:96112200-96112800	Enhancers	Placenta Amnion	Placenta Amnion
42	chr4:96112400-96112600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr4:96112400-96112800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr4:96112400-96114200	Weak transcription	Fetal Muscle Trunk	muscle

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