Variant report

Variant	rs6758596
Chromosome Location	chr2:39658637-39658638
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:39657902..39660340-chr2:39663128..39665771,3	K562	blood:
2	chr2:39652432..39656926-chr2:39657241..39661273,4	MCF-7	breast:
3	chr2:39655304..39658022-chr2:39658367..39662517,3	K562	blood:
4	chr2:39651403..39653951-chr2:39655387..39658790,4	K562	blood:
5	chr2:39642838..39645450-chr2:39657928..39659607,2	K562	blood:
6	chr2:39654637..39656374-chr2:39657864..39660833,3	K562	blood:
7	chr2:39643905..39646272-chr2:39657496..39659810,2	MCF-7	breast:
8	chr2:39613441..39616248-chr2:39657678..39659490,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000231312	Chromatin interaction
ENSG00000011566	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10169501	0.85[ASN][1000 genomes]
rs10173722	0.84[ASN][1000 genomes]
rs10196447	0.82[CHB][hapmap];0.88[JPT][hapmap]
rs10199459	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10199948	0.81[JPT][hapmap]
rs11124683	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11896389	0.91[EUR][1000 genomes]
rs12328714	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12624242	0.86[MKK][hapmap]
rs12712640	0.90[MKK][hapmap]
rs17023530	0.94[EUR][1000 genomes]
rs17023542	0.82[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes]
rs17023547	0.82[CEU][hapmap];0.94[EUR][1000 genomes]
rs17023600	0.94[EUR][1000 genomes]
rs17023611	0.94[EUR][1000 genomes]
rs17023684	1.00[EUR][1000 genomes]
rs17023696	0.82[CEU][hapmap];1.00[GIH][hapmap];0.83[TSI][hapmap];1.00[EUR][1000 genomes]
rs17023773	0.97[EUR][1000 genomes]
rs17446102	0.82[CEU][hapmap];0.94[EUR][1000 genomes]
rs17446515	0.82[CEU][hapmap];0.94[EUR][1000 genomes]
rs17446690	0.82[CEU][hapmap];0.94[EUR][1000 genomes]
rs17505580	0.94[EUR][1000 genomes]
rs17505877	0.94[EUR][1000 genomes]
rs2056653	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2056655	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2111383	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2373530	0.88[CHB][hapmap];0.94[CHD][hapmap];0.90[JPT][hapmap]
rs2373532	0.82[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3732052	1.00[EUR][1000 genomes]
rs4670273	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4670938	1.00[CEU][hapmap];0.88[CHB][hapmap];0.93[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55761128	1.00[EUR][1000 genomes]
rs6544227	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6544229	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6720537	0.93[ASW][hapmap];1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6720951	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6721049	0.88[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6721740	0.97[EUR][1000 genomes]
rs6731310	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73924009	1.00[EUR][1000 genomes]
rs7559436	1.00[EUR][1000 genomes]
rs7577097	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs7588265	0.88[CHB][hapmap];0.90[JPT][hapmap]
rs7596222	0.88[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap]
rs7605939	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9037	0.82[MKK][hapmap]
rs9309036	0.80[MKK][hapmap]

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	esv1827292	chr2:39385155-39675339	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	esv1812828	chr2:39396457-39675339	Flanking Active TSS Strong transcription Active TSS Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv997934	chr2:39473548-39751029	Enhancers Strong transcription ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv2695	chr2:39643221-39688015	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39637200-39659000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr2:39640800-39660000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr2:39641200-39659600	Weak transcription	Brain Angular Gyrus	brain
4	chr2:39644200-39661600	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr2:39645000-39658800	Weak transcription	Brain Anterior Caudate	brain
6	chr2:39646000-39660200	Weak transcription	Fetal Intestine Small	intestine
7	chr2:39647200-39659000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr2:39647800-39660200	Weak transcription	Pancreas	Pancrea
9	chr2:39649800-39659200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr2:39652000-39662400	Weak transcription	Esophagus	oesophagus
11	chr2:39652000-39662400	Weak transcription	Lung	lung
12	chr2:39652400-39661200	Weak transcription	HUVEC	blood vessel
13	chr2:39652800-39659000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr2:39652800-39660200	Weak transcription	Ovary	ovary
15	chr2:39652800-39661400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr2:39652800-39661400	Weak transcription	Primary hematopoietic stem cells	blood
17	chr2:39652800-39661600	Weak transcription	Fetal Thymus	thymus
18	chr2:39654000-39659800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr2:39654400-39660400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr2:39654800-39658800	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr2:39655000-39659000	Weak transcription	Primary T cells from cord blood	blood
22	chr2:39655200-39659000	Weak transcription	Dnd41	blood
23	chr2:39655200-39660400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr2:39656400-39658800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr2:39656600-39659000	Genic enhancers	HepG2	liver
26	chr2:39656600-39659400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
27	chr2:39656600-39660600	Enhancers	iPS-18 Cell Line	embryonic stem cell
28	chr2:39656600-39660800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr2:39656600-39661200	Enhancers	Fetal Heart	heart
30	chr2:39656600-39661800	Enhancers	iPS-20b Cell Line	embryonic stem cell
31	chr2:39656600-39662200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr2:39656800-39659600	Enhancers	A549	lung
33	chr2:39656800-39660000	Enhancers	Brain Hippocampus Middle	brain
34	chr2:39657200-39659400	Enhancers	HMEC	breast
35	chr2:39657200-39660000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr2:39657200-39661200	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr2:39657400-39660800	Weak transcription	NH-A	brain
38	chr2:39657400-39661600	Enhancers	Adipose Nuclei	Adipose
39	chr2:39657600-39659400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr2:39657600-39660000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr2:39657600-39660600	Enhancers	iPS-15b Cell Line	embryonic stem cell
42	chr2:39657600-39661200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr2:39657800-39658800	Enhancers	Duodenum Smooth Muscle	Duodenum
44	chr2:39657800-39659800	Enhancers	NHEK	skin
45	chr2:39657800-39660800	Enhancers	Skeletal Muscle Female	skeletal muscle
46	chr2:39657800-39661000	Enhancers	HUES6 Cell Line	embryonic stem cell
47	chr2:39657800-39661600	Enhancers	NHDF-Ad	bronchial
48	chr2:39657800-39661800	Enhancers	Colon Smooth Muscle	Colon
49	chr2:39657800-39662400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
50	chr2:39658000-39659000	Weak transcription	Duodenum Mucosa	Duodenum

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