Variant report

Variant	rs1833040
Chromosome Location	chr1:216771572-216771573
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:216768575..216772450-chr1:216772804..216775706,3	MCF-7	breast:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10218694	0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10863256	0.91[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs10863258	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11117627	0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11117628	0.95[ASN][1000 genomes]
rs12087642	0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs12088947	0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1419242	0.86[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1857401	0.91[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2377106	0.87[CHD][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs4846546	0.90[ASN][1000 genomes]
rs6701062	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7519402	0.97[ASN][1000 genomes]
rs7533692	0.87[CHD][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs7544758	0.82[CHD][hapmap];0.90[JPT][hapmap]
rs7546236	0.86[CHD][hapmap];0.90[JPT][hapmap]
rs7553212	0.86[JPT][hapmap]
rs951034	0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[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	nsv549199	chr1:216384908-216814702	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv1003815	chr1:216504235-216836498	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv535289	chr1:216504235-216836498	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv873178	chr1:216714314-216813244	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	1 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	chr1:216721800-216774000	Weak transcription	Placenta	Placenta
2	chr1:216757400-216773600	Weak transcription	Fetal Intestine Small	intestine
3	chr1:216764800-216773400	Weak transcription	Brain Substantia Nigra	brain
4	chr1:216769800-216773200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr1:216769800-216773400	Weak transcription	Brain Anterior Caudate	brain
6	chr1:216769800-216773800	Weak transcription	Fetal Intestine Large	intestine
7	chr1:216770000-216771600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr1:216770000-216771600	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr1:216770000-216771600	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr1:216770000-216773200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr1:216770000-216773200	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr1:216770000-216773200	Weak transcription	Brain Cingulate Gyrus	brain
13	chr1:216770000-216773400	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr1:216770000-216773400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr1:216770000-216773400	Weak transcription	Brain Hippocampus Middle	brain
16	chr1:216770000-216773600	Weak transcription	Fetal Heart	heart
17	chr1:216770000-216773600	Weak transcription	Fetal Kidney	kidney
18	chr1:216770000-216773800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr1:216770000-216774000	Weak transcription	Left Ventricle	heart
20	chr1:216770200-216773200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr1:216770200-216773200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr1:216770200-216773200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr1:216770200-216773600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
24	chr1:216770200-216773600	Weak transcription	Fetal Lung	lung
25	chr1:216770200-216773800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr1:216770800-216773800	Enhancers	HUES64 Cell Line	embryonic stem cell
27	chr1:216771200-216771600	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr1:216771400-216773600	Enhancers	iPS-18 Cell Line	embryonic stem cell
29	chr1:216771400-216773800	Enhancers	iPS-20b Cell Line	embryonic stem cell

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