Variant report

Variant	rs17604777
Chromosome Location	chr5:126730987-126730988
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:126720949..126723955-chr5:126728793..126732300,3	MCF-7	breast:

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10519937	0.83[EUR][1000 genomes]
rs10519938	0.83[EUR][1000 genomes]
rs11949373	0.88[EUR][1000 genomes]
rs11950058	0.88[EUR][1000 genomes]
rs11952947	0.88[EUR][1000 genomes]
rs11953024	0.88[EUR][1000 genomes]
rs11958435	0.88[EUR][1000 genomes]
rs11959505	0.85[EUR][1000 genomes]
rs1363385	1.00[CEU][hapmap];0.86[JPT][hapmap];0.87[EUR][1000 genomes]
rs1529467	0.88[EUR][1000 genomes]
rs17164935	0.84[CEU][hapmap]
rs17164979	0.88[EUR][1000 genomes]
rs17164995	0.85[CEU][hapmap]
rs17164996	0.84[CEU][hapmap];0.88[EUR][1000 genomes]
rs173509	0.86[EUR][1000 genomes]
rs17444885	1.00[CHB][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17604615	0.84[CEU][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17604665	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17604819	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17604882	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17604889	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17604946	1.00[CHB][hapmap];0.86[JPT][hapmap];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17673474	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17673517	1.00[CHB][hapmap];0.86[JPT][hapmap];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17673685	0.84[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17839695	0.85[CEU][hapmap];0.87[EUR][1000 genomes]
rs2068168	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][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]
rs3812053	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3812054	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3812055	0.84[CEU][hapmap];0.87[EUR][1000 genomes]
rs41298308	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41298312	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4563674	0.88[EUR][1000 genomes]
rs6595764	0.83[EUR][1000 genomes]
rs6595767	0.84[CEU][hapmap];0.87[EUR][1000 genomes]
rs6595768	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6595769	0.84[CEU][hapmap];0.87[EUR][1000 genomes]
rs67200948	0.87[EUR][1000 genomes]
rs67854568	0.88[EUR][1000 genomes]
rs68035691	0.88[EUR][1000 genomes]
rs6874392	0.88[EUR][1000 genomes]
rs6874521	0.85[CEU][hapmap]
rs6882034	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6888010	0.83[EUR][1000 genomes]
rs6891785	0.88[EUR][1000 genomes]
rs6892742	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6897290	0.85[EUR][1000 genomes]
rs72788576	0.86[ASN][1000 genomes]
rs72788578	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72788581	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72788599	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72790405	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72790408	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72790410	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72790411	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72790412	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72790417	1.00[ASN][1000 genomes]
rs72790418	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72790419	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72790428	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72790430	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72790433	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72790438	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72790443	0.80[EUR][1000 genomes]
rs72790444	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72790451	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72790460	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73786108	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033607	chr5:126385181-127304459	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv1019821	chr5:126658200-126934917	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv537894	chr5:126658200-126934917	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv1032587	chr5:126691103-126826978	Genic enhancers Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv830478	chr5:126721368-126937408	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:126691000-126746000	Weak transcription	Fetal Muscle Trunk	muscle
2	chr5:126707800-126731600	Weak transcription	Brain Anterior Caudate	brain
3	chr5:126710000-126731800	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr5:126710200-126741200	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr5:126712800-126734200	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr5:126714800-126732200	Weak transcription	HSMMtube	muscle
7	chr5:126715200-126731600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr5:126720000-126732400	Weak transcription	Brain Cingulate Gyrus	brain
9	chr5:126720000-126732400	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr5:126720000-126742000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr5:126722800-126736000	Weak transcription	HSMM	muscle
12	chr5:126725000-126731800	Weak transcription	Fetal Muscle Leg	muscle
13	chr5:126728400-126732000	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr5:126729400-126731600	Weak transcription	Brain Hippocampus Middle	brain
15	chr5:126729400-126732600	Weak transcription	Brain Angular Gyrus	brain
16	chr5:126730400-126731600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr5:126730600-126731600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr5:126730600-126731800	Weak transcription	Brain Substantia Nigra	brain
19	chr5:126730800-126734400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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