Variant report

Variant	rs41397850
Chromosome Location	chr6:87959212-87959213
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

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

rs_ID	r²[population]
rs10488045	1.00[CEU][hapmap];0.95[YRI][hapmap]
rs10498960	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap]
rs16878473	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap]
rs16878570	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap]
rs16878622	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap]
rs16878638	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap]
rs16878712	1.00[CEU][hapmap];0.95[YRI][hapmap]
rs16878713	1.00[CEU][hapmap];0.95[YRI][hapmap]
rs16878736	1.00[CEU][hapmap];0.95[YRI][hapmap]
rs16878809	1.00[CEU][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];0.91[YRI][hapmap]
rs16878942	1.00[CEU][hapmap];0.95[YRI][hapmap]
rs16878991	0.89[YRI][hapmap]
rs16878999	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.90[YRI][hapmap]
rs16879012	0.89[YRI][hapmap]
rs1925693	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.90[YRI][hapmap]
rs41398947	1.00[CEU][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap]

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	esv2758067	chr6:87817883-87992957	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2759453	chr6:87817883-87992957	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:87884000-87964400	Weak transcription	NHEK	skin
2	chr6:87888200-87964200	Weak transcription	HSMMtube	muscle
3	chr6:87906400-87964400	Weak transcription	NHLF	lung
4	chr6:87923400-87969000	Weak transcription	Psoas Muscle	Psoas
5	chr6:87924400-87966000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr6:87934600-87964200	Weak transcription	Rectal Smooth Muscle	rectum
7	chr6:87934600-87964400	Weak transcription	Brain Angular Gyrus	brain
8	chr6:87934600-87967000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr6:87934800-87964200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr6:87935200-87963400	Weak transcription	Hela-S3	cervix
11	chr6:87935200-87963600	Weak transcription	NHDF-Ad	bronchial
12	chr6:87936400-87961600	Weak transcription	Right Atrium	heart
13	chr6:87936800-87964200	Weak transcription	Fetal Brain Male	brain
14	chr6:87946000-87964400	Weak transcription	Fetal Heart	heart
15	chr6:87948200-87961400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr6:87948800-87971200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr6:87949600-87961400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr6:87949600-87970200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr6:87949800-87962000	Strong transcription	Primary T helper cells fromperipheralblood	blood
20	chr6:87950200-87960200	Strong transcription	Monocytes-CD14+_RO01746	blood
21	chr6:87950200-87960400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
22	chr6:87950200-87960400	Strong transcription	Primary monocytes fromperipheralblood	blood
23	chr6:87950200-87962600	Strong transcription	HUES48 Cell Line	embryonic stem cell
24	chr6:87950200-87967600	Strong transcription	Fetal Lung	lung
25	chr6:87950200-87968200	Strong transcription	Primary T cells fromperipheralblood	blood
26	chr6:87950400-87959400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr6:87950400-87960400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr6:87950400-87970600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr6:87950400-87971400	Strong transcription	Dnd41	blood
30	chr6:87950600-87959600	Strong transcription	HUES6 Cell Line	embryonic stem cell
31	chr6:87950600-87964200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr6:87950800-87964000	Strong transcription	HUES64 Cell Line	embryonic stem cell
33	chr6:87950800-87966000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr6:87951600-87964200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr6:87952200-87960200	Strong transcription	Primary B cells from peripheral blood	blood
36	chr6:87952200-87964600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr6:87952200-87967600	Strong transcription	Primary hematopoietic stem cells	blood
38	chr6:87952600-87961000	Strong transcription	Primary neutrophils fromperipheralblood	blood
39	chr6:87953000-87961400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr6:87953200-87960000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr6:87953400-87968200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
42	chr6:87953600-87959400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
43	chr6:87954200-87967600	Weak transcription	Stomach Mucosa	stomach
44	chr6:87954200-87970000	Strong transcription	Fetal Muscle Trunk	muscle
45	chr6:87954400-87964400	Weak transcription	HMEC	breast
46	chr6:87954600-87959600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr6:87954600-87960000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr6:87954600-87960200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr6:87954600-87960200	Strong transcription	Fetal Intestine Small	intestine
50	chr6:87954600-87961200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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