Variant report

Variant	rs16866425
Chromosome Location	chr2:179498303-179498304
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10176708	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs10179811	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs10183237	0.84[EUR][1000 genomes]
rs10183361	0.84[EUR][1000 genomes]
rs10203085	0.84[EUR][1000 genomes]
rs10204913	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10221760	1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11888217	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs13398235	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs13398590	1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13417645	1.00[CEU][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16866416	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16866473	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs17355446	1.00[CEU][hapmap]
rs1864243	1.00[CEU][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2366752	1.00[CEU][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2366753	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs28378468	0.89[EUR][1000 genomes]
rs28715837	0.89[EUR][1000 genomes]
rs4893852	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs4894034	1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7590037	1.00[CEU][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]
rs7606485	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv834468	chr2:179351116-179533625	Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	esv2757841	chr2:179409072-179608242	Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	esv2759103	chr2:179409072-179608242	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv1000642	chr2:179438866-179503211	Strong transcription Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:179408000-179503000	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr2:179438400-179518200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr2:179440600-179505200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr2:179441400-179498800	Weak transcription	Brain Anterior Caudate	brain
5	chr2:179472400-179502600	Weak transcription	Brain Substantia Nigra	brain
6	chr2:179472800-179498600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr2:179477000-179502400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr2:179479000-179500600	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr2:179479600-179519400	Weak transcription	Fetal Thymus	thymus
10	chr2:179479800-179512000	Weak transcription	Lung	lung
11	chr2:179480400-179500600	Weak transcription	Ovary	ovary
12	chr2:179481400-179520000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr2:179482800-179500600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr2:179483200-179655400	Weak transcription	Adipose Nuclei	Adipose
15	chr2:179486800-179498400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr2:179492800-179501800	Strong transcription	Primary T cells from cord blood	blood
17	chr2:179492800-179502800	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr2:179492800-179502800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr2:179492800-179505600	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr2:179493000-179505800	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr2:179493000-179620800	Weak transcription	HSMM	muscle
22	chr2:179493200-179501400	Strong transcription	Primary B cells from cord blood	blood
23	chr2:179494000-179501400	Strong transcription	Primary T helper cells fromperipheralblood	blood
24	chr2:179494000-179501800	Strong transcription	Primary T helper cells PMA-I stimulated	--
25	chr2:179494200-179502800	Genic enhancers	Fetal Heart	heart
26	chr2:179494400-179500800	Strong transcription	Left Ventricle	heart
27	chr2:179494600-179502200	Weak transcription	Aorta	Aorta
28	chr2:179495400-179502600	Strong transcription	Fetal Muscle Leg	muscle
29	chr2:179496000-179521600	Weak transcription	Fetal Intestine Large	intestine
30	chr2:179496400-179503000	Strong transcription	HSMMtube	muscle
31	chr2:179496800-179500800	Strong transcription	Primary B cells from peripheral blood	blood
32	chr2:179496800-179502800	Genic enhancers	Skeletal Muscle Male	skeletal muscle
33	chr2:179497000-179498400	Strong transcription	Fetal Muscle Trunk	muscle
34	chr2:179497000-179502600	Genic enhancers	Skeletal Muscle Female	skeletal muscle
35	chr2:179497400-179501000	Strong transcription	Primary T cells fromperipheralblood	blood
36	chr2:179497400-179502400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr2:179497800-179500600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr2:179497800-179516400	Weak transcription	Primary hematopoietic stem cells	blood
39	chr2:179497800-179518400	Weak transcription	Pancreas	Pancrea
40	chr2:179497800-179530400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr2:179498000-179498400	Strong transcription	Brain Hippocampus Middle	brain
42	chr2:179498000-179498800	Weak transcription	Psoas Muscle	Psoas
43	chr2:179498000-179521000	Weak transcription	Right Ventricle	heart

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