Variant report

Variant	rs6658144
Chromosome Location	chr1:92252015-92252016
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11466561	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11466563	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs61781084	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61781085	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61781086	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61781087	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61781090	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61781098	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6685743	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:19 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009560	chr1:91897078-92270781	Enhancers Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv1012864	chr1:92067100-92827761	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
3	nsv535029	chr1:92067100-92827761	Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv530438	chr1:92091957-92827760	Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv1010179	chr1:92140209-92655952	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
6	nsv535030	chr1:92140209-92655952	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
7	nsv1005917	chr1:92189945-92378683	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv949449	chr1:92211020-92585831	Strong transcription Enhancers Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
9	nsv524845	chr1:92215725-92598705	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
10	nsv462517	chr1:92215725-92598705	Weak transcription Bivalent Enhancer Enhancers Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
11	nsv546810	chr1:92215725-92598705	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
12	nsv1006318	chr1:92216408-92608324	Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
13	nsv432498	chr1:92218245-92618323	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
14	nsv1004570	chr1:92220544-92622129	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
15	nsv1007661	chr1:92220544-92655952	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
16	nsv1014837	chr1:92233905-92618839	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
17	nsv535031	chr1:92233905-92618839	Bivalent/Poised TSS Enhancers Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
18	nsv1012134	chr1:92235485-92598800	Weak transcription Genic enhancers Flanking Active TSS Active TSS Enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
19	nsv546818	chr1:92236048-92579206	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:92220600-92255800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
2	chr1:92227000-92257200	Weak transcription	Fetal Intestine Small	intestine
3	chr1:92233200-92257000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr1:92241400-92255800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr1:92241800-92255800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr1:92244000-92253600	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr1:92244600-92255200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr1:92244600-92257200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr1:92245200-92261200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr1:92245400-92254200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr1:92245600-92254000	Weak transcription	Brain Anterior Caudate	brain
12	chr1:92245600-92258400	Weak transcription	Brain Angular Gyrus	brain
13	chr1:92245800-92255200	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr1:92246000-92255400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr1:92246800-92257800	Genic enhancers	NHDF-Ad	bronchial
16	chr1:92247400-92255800	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr1:92248200-92256000	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr1:92248200-92268800	Weak transcription	Duodenum Mucosa	Duodenum
19	chr1:92248600-92262800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr1:92248600-92268800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr1:92249000-92254000	Weak transcription	Liver	Liver
22	chr1:92249000-92256800	Weak transcription	Small Intestine	intestine
23	chr1:92249000-92257200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr1:92249000-92257200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr1:92249000-92257200	Weak transcription	Esophagus	oesophagus
26	chr1:92249200-92253000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr1:92249200-92253400	Weak transcription	Fetal Muscle Trunk	muscle
28	chr1:92249200-92253400	Weak transcription	Left Ventricle	heart
29	chr1:92249200-92253400	Weak transcription	Lung	lung
30	chr1:92249200-92253800	Weak transcription	Rectal Smooth Muscle	rectum
31	chr1:92249200-92255800	Weak transcription	Primary T helper cells PMA-I stimulated	--
32	chr1:92249200-92256800	Weak transcription	Pancreas	Pancrea
33	chr1:92249200-92257000	Weak transcription	Brain Cingulate Gyrus	brain
34	chr1:92249200-92263800	Weak transcription	Aorta	Aorta
35	chr1:92249600-92256400	Weak transcription	A549	lung
36	chr1:92250200-92253800	Weak transcription	Fetal Kidney	kidney
37	chr1:92250200-92255400	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr1:92250400-92253000	Weak transcription	Fetal Lung	lung
39	chr1:92250400-92253000	Weak transcription	Right Ventricle	heart
40	chr1:92250400-92253600	Weak transcription	NHLF	lung
41	chr1:92250400-92254200	Weak transcription	Brain Hippocampus Middle	brain
42	chr1:92250400-92263800	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr1:92250600-92253000	Weak transcription	Fetal Muscle Leg	muscle
44	chr1:92250600-92253000	Weak transcription	Ovary	ovary
45	chr1:92250600-92253200	Weak transcription	Colon Smooth Muscle	Colon
46	chr1:92250600-92253400	Weak transcription	Stomach Smooth Muscle	stomach
47	chr1:92250600-92253800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr1:92250600-92253800	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr1:92250600-92256800	Weak transcription	Psoas Muscle	Psoas
50	chr1:92250800-92253000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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