Variant report

Variant	rs4105685
Chromosome Location	chr12:32667713-32667714
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10506090	0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10506093	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10771961	0.91[ASN][1000 genomes]
rs10844224	0.90[ASN][1000 genomes]
rs10844226	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10844227	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10844228	0.86[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10844229	0.89[ASN][1000 genomes]
rs10844230	0.93[ASN][1000 genomes]
rs10844231	0.93[ASN][1000 genomes]
rs10844232	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10844234	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11052040	0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs11052041	0.93[ASN][1000 genomes]
rs11052042	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11052046	0.93[ASN][1000 genomes]
rs11052052	0.90[ASN][1000 genomes]
rs11052053	0.93[ASN][1000 genomes]
rs11052055	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11052079	1.00[JPT][hapmap]
rs11608343	0.86[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12322132	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12366886	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1500875	0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs16920058	1.00[JPT][hapmap]
rs16920125	1.00[JPT][hapmap]
rs17536908	0.94[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1909509	1.00[JPT][hapmap]
rs2036266	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2133944	0.88[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4520681	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs61928965	0.98[ASN][1000 genomes]
rs73092002	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73094103	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7953022	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7964715	0.93[ASN][1000 genomes]
rs7967306	0.93[ASN][1000 genomes]
rs7967702	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7970857	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7974089	0.96[ASN][1000 genomes]
rs7977101	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7980571	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531960	chr12:32257285-32775277	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription 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	19 gene(s)	inside rSNPs	diseases
2	esv2751096	chr12:32280340-32702784	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats 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
3	nsv1054191	chr12:32534619-32733066	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv541455	chr12:32534619-32733066	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	esv3342938	chr12:32551041-32716745	Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv898970	chr12:32622097-32680236	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:32655200-32686000	Weak transcription	Lung	lung
2	chr12:32656000-32668000	Weak transcription	Fetal Thymus	thymus
3	chr12:32656200-32668000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr12:32656400-32685800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr12:32658600-32667800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr12:32658600-32682000	Weak transcription	Fetal Muscle Trunk	muscle
7	chr12:32659600-32668000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr12:32659600-32675200	Weak transcription	Fetal Stomach	stomach
9	chr12:32659800-32669000	Weak transcription	Brain Hippocampus Middle	brain
10	chr12:32661000-32668000	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr12:32661000-32668000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr12:32661200-32668200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr12:32661200-32675600	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr12:32661400-32668200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr12:32661400-32668800	Weak transcription	Brain Cingulate Gyrus	brain
16	chr12:32661600-32668000	Weak transcription	HUVEC	blood vessel
17	chr12:32661800-32667800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr12:32661800-32668000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr12:32661800-32668200	Weak transcription	Primary monocytes fromperipheralblood	blood
20	chr12:32661800-32674000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr12:32661800-32674000	Weak transcription	Fetal Muscle Leg	muscle
22	chr12:32662000-32668200	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr12:32662000-32671000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr12:32662000-32674800	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr12:32662000-32675600	Weak transcription	Fetal Brain Male	brain
26	chr12:32662800-32667800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr12:32663000-32668000	Weak transcription	Ovary	ovary
28	chr12:32663000-32669200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr12:32663000-32674600	Weak transcription	Brain Angular Gyrus	brain
30	chr12:32663200-32668000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr12:32663200-32668000	Weak transcription	Stomach Mucosa	stomach
32	chr12:32663200-32668200	Weak transcription	Brain Substantia Nigra	brain
33	chr12:32663200-32673800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr12:32665400-32670000	Enhancers	Primary neutrophils fromperipheralblood	blood
35	chr12:32665800-32667800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr12:32665800-32668000	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr12:32665800-32675600	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr12:32666200-32667800	Weak transcription	H1 Cell Line	embryonic stem cell
39	chr12:32666200-32667800	Weak transcription	Right Atrium	heart
40	chr12:32666200-32668000	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr12:32666400-32675600	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr12:32666600-32668000	Weak transcription	Liver	Liver
43	chr12:32666600-32668000	Weak transcription	Fetal Intestine Large	intestine
44	chr12:32666600-32668000	Weak transcription	Fetal Intestine Small	intestine
45	chr12:32666600-32668200	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr12:32666600-32674600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr12:32666600-32685200	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr12:32666800-32667800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr12:32666800-32668000	Weak transcription	Psoas Muscle	Psoas
50	chr12:32666800-32668600	Weak transcription	Monocytes-CD14+_RO01746	blood

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