Variant report

Variant	rs16866539
Chromosome Location	chr2:179670235-179670236
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10221557	1.00[AMR][1000 genomes]
rs10803917	1.00[AMR][1000 genomes]
rs10803918	1.00[AMR][1000 genomes]
rs13408466	1.00[AMR][1000 genomes]
rs13422986	1.00[AMR][1000 genomes]
rs13427087	1.00[AMR][1000 genomes]
rs16866469	1.00[AMR][1000 genomes]
rs16866476	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16866477	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16866488	1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs16866489	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16866490	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1812638	1.00[AMR][1000 genomes]
rs2366910	1.00[AMR][1000 genomes]
rs4894036	1.00[AMR][1000 genomes]
rs4894038	1.00[AMR][1000 genomes]
rs4894039	1.00[AMR][1000 genomes]
rs4894043	1.00[AMR][1000 genomes]
rs56821960	1.00[AMR][1000 genomes]
rs57389274	1.00[AMR][1000 genomes]
rs6433731	1.00[AMR][1000 genomes]
rs6433732	1.00[AMR][1000 genomes]
rs6738484	1.00[AMR][1000 genomes]
rs72646882	1.00[AMR][1000 genomes]
rs72648903	1.00[AMR][1000 genomes]
rs922985	1.00[AMR][1000 genomes]
rs922986	1.00[AMR][1000 genomes]

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	nsv834470	chr2:179555152-179728726	Active TSS Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv934108	chr2:179556852-179729925	Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:179610800-179671400	Weak transcription	Ovary	ovary
2	chr2:179639000-179672000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr2:179639400-179671400	Weak transcription	Gastric	stomach
4	chr2:179646000-179684800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr2:179647800-179672000	Weak transcription	Fetal Thymus	thymus
6	chr2:179655800-179670800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr2:179656800-179674400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr2:179659200-179671400	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr2:179659400-179698000	Weak transcription	Primary B cells from cord blood	blood
10	chr2:179659800-179671200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr2:179663800-179671200	Transcr. at gene 5' and 3'	Skeletal Muscle Female	skeletal muscle
12	chr2:179664600-179672000	Weak transcription	Thymus	Thymus
13	chr2:179664800-179673000	Active TSS	Right Atrium	heart
14	chr2:179666800-179684800	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr2:179667200-179673000	Active TSS	Right Ventricle	heart
16	chr2:179668400-179673000	ZNF genes & repeats	Fetal Heart	heart
17	chr2:179669400-179671400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr2:179669600-179671200	Weak transcription	HSMM	muscle
19	chr2:179669600-179671400	Weak transcription	Aorta	Aorta
20	chr2:179669600-179672200	Active TSS	HSMMtube	muscle
21	chr2:179669600-179672400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr2:179669600-179680800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr2:179669800-179673200	Active TSS	Fetal Muscle Leg	muscle
24	chr2:179669800-179674600	Weak transcription	Primary T cells from cord blood	blood
25	chr2:179670000-179671400	Weak transcription	Pancreas	Pancrea
26	chr2:179670000-179672800	Active TSS	Fetal Muscle Trunk	muscle
27	chr2:179670000-179674000	Active TSS	Psoas Muscle	Psoas
28	chr2:179670000-179674000	Active TSS	Skeletal Muscle Male	skeletal muscle
29	chr2:179670200-179671800	Weak transcription	Left Ventricle	heart

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