Variant report

Variant	rs11802727
Chromosome Location	chr1:160941682-160941683
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs1044478	0.82[JPT][hapmap]
rs1062826	0.83[CEU][hapmap];0.93[JPT][hapmap]
rs1062827	0.83[CEU][hapmap];0.93[JPT][hapmap]
rs11800456	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11800797	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11801586	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11801591	0.90[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11802250	0.97[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs11802731	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11804166	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11804856	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11805856	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11807930	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs12403334	1.00[JPT][hapmap];0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12403886	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12562121	0.91[AFR][1000 genomes];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12565932	0.83[CEU][hapmap];0.93[JPT][hapmap]
rs1556519	1.00[YRI][hapmap]
rs17384360	1.00[YRI][hapmap]
rs17388108	0.84[CEU][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs2073655	1.00[YRI][hapmap]
rs2073656	1.00[YRI][hapmap]
rs2247459	0.84[CEU][hapmap];0.93[JPT][hapmap]
rs2247596	0.83[CEU][hapmap];0.93[JPT][hapmap]
rs2247671	0.84[CEU][hapmap];0.94[JPT][hapmap]
rs2247790	0.84[CEU][hapmap];0.94[JPT][hapmap]
rs2255852	0.87[JPT][hapmap]
rs2297220	0.84[CEU][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs2297221	0.83[CEU][hapmap];0.93[JPT][hapmap]
rs2481080	0.84[CEU][hapmap];0.94[JPT][hapmap]
rs2481081	0.84[CEU][hapmap];0.94[JPT][hapmap]
rs2481084	0.83[CEU][hapmap];0.93[JPT][hapmap]
rs28544288	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28701476	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28726136	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28776781	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28809889	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35923797	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3737785	0.94[JPT][hapmap]
rs3737787	1.00[YRI][hapmap]
rs55651159	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55688440	0.97[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs55700711	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55729337	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55890734	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56199992	0.97[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs56201963	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56289112	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56383095	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61802209	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61802210	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61802214	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61802215	0.94[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs61802216	0.94[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs61802217	0.97[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61802219	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61802220	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61802221	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61802225	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61802226	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61802227	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61802229	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61802230	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61802231	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72712826	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72712828	0.97[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72712846	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs836	0.83[CEU][hapmap];0.93[JPT][hapmap]
rs869985	0.83[CEU][hapmap];0.93[JPT][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	nsv530077	chr1:160836448-161284904	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
2	nsv548058	chr1:160925455-160989614	Flanking Active TSS Genic enhancers Active TSS Enhancers Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160931000-160942000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr1:160941200-160941800	Enhancers	iPS-15b Cell Line	embryonic stem cell
3	chr1:160941200-160941800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr1:160941200-160942200	Enhancers	GM12878-XiMat	blood
5	chr1:160941200-160942600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:160941200-160942800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr1:160941200-160943200	Enhancers	H1 Cell Line	embryonic stem cell
8	chr1:160941200-160943800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr1:160941200-160943800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr1:160941400-160941800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr1:160941400-160941800	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr1:160941400-160941800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr1:160941400-160941800	Enhancers	Cortex derived primary cultured neurospheres	brain
14	chr1:160941400-160942000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr1:160941400-160942000	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
16	chr1:160941400-160942000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr1:160941400-160942000	Enhancers	NHEK	skin
18	chr1:160941400-160942200	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
19	chr1:160941400-160943800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr1:160941600-160941800	Active TSS	ES-I3 Cell Line	embryonic stem cell
21	chr1:160941600-160942000	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
22	chr1:160941600-160942000	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
23	chr1:160941600-160942800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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