Variant report

Variant	rs10170878
Chromosome Location	chr2:100877574-100877575
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:100877002..100888885-chr2:100934823..100940762,23	MCF-7	breast:
2	chr2:100876921..100878044-chr2:100997529..100998340,3	K562	blood:
3	chr2:100684789..100685779-chr2:100877301..100878058,2	MCF-7	breast:
4	chr2:100873599..100875237-chr2:100876970..100878624,2	MCF-7	breast:
5	chr2:100059471..100059973-chr2:100877276..100877813,2	K562	blood:
6	chr2:100876984..100878779-chr2:101034439..101036226,2	K562	blood:
7	chr2:100435040..100435951-chr2:100877088..100877597,2	MCF-7	breast:
8	chr2:100876613..100880348-chr2:101031611..101035939,8	K562	blood:
9	chr2:100175238..100176204-chr2:100876861..100877763,3	MCF-7	breast:
10	chr2:100875966..100878799-chr2:100906876..100908974,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000115526	Chromatin interaction
ENSG00000170500	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10173499	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10199107	0.81[EUR][1000 genomes]
rs10865039	1.00[JPT][hapmap]
rs11886523	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12463633	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12464433	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12464505	0.95[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12467008	0.95[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12472141	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12611915	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13394110	0.92[AFR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13397010	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13397337	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2309815	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs2309817	1.00[JPT][hapmap]
rs2309822	1.00[JPT][hapmap]
rs2309823	1.00[JPT][hapmap]
rs2309824	1.00[JPT][hapmap]
rs2871341	0.87[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34044131	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4851281	0.87[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4851282	0.87[CEU][hapmap];1.00[CHB][hapmap];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4851287	1.00[JPT][hapmap]
rs55856206	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57328601	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60501704	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62148117	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62148118	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6542919	1.00[JPT][hapmap]
rs6542923	1.00[JPT][hapmap]
rs6542924	1.00[JPT][hapmap]
rs6707358	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6724490	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6727712	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72819202	0.84[AMR][1000 genomes]
rs72821104	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72821119	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72821120	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72821122	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72821124	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72821125	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72821126	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72821130	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72821133	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7559464	1.00[JPT][hapmap]
rs7562372	1.00[JPT][hapmap]
rs7582180	1.00[JPT][hapmap]
rs7588623	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007777	chr2:100816913-101308914	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv535844	chr2:100816913-101308914	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv834311	chr2:100816917-100990036	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:100864200-100879800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr2:100865800-100879800	Weak transcription	Right Atrium	heart
3	chr2:100874600-100879200	Weak transcription	Brain Angular Gyrus	brain
4	chr2:100874600-100891400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr2:100875200-100881600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr2:100876400-100877600	Enhancers	Fetal Brain Male	brain
7	chr2:100876400-100877600	Enhancers	Fetal Brain Female	brain
8	chr2:100877000-100877600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
9	chr2:100877000-100877600	Enhancers	Stomach Smooth Muscle	stomach
10	chr2:100877000-100877800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr2:100877000-100879200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr2:100877000-100879400	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr2:100877200-100877600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr2:100877200-100877600	Enhancers	Ovary	ovary
15	chr2:100877200-100877800	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr2:100877200-100877800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
17	chr2:100877200-100879200	Weak transcription	Fetal Lung	lung
18	chr2:100877400-100877600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr2:100877400-100877600	Bivalent Enhancer	Placenta	Placenta
20	chr2:100877400-100878000	Enhancers	Monocytes-CD14+_RO01746	blood
21	chr2:100877400-100879200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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