Variant report

Variant	rs10477875
Chromosome Location	chr5:106324675-106324676
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10052471	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10062690	0.85[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10068963	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10075477	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10479391	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11744426	1.00[JPT][hapmap]
rs12054932	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12653426	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28369477	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4073517	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4245988	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4262090	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4264929	0.85[CHB][hapmap];0.85[JPT][hapmap];0.91[ASN][1000 genomes]
rs4351137	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4382150	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4476284	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4482891	0.82[ASN][1000 genomes]
rs4533874	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4957679	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4957682	0.81[AFR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6862175	0.83[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs6866081	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6866693	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6867623	0.91[ASN][1000 genomes]
rs6874482	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6876240	0.83[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs6880364	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6885273	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6893146	0.81[EUR][1000 genomes]
rs7443308	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7447229	0.84[EUR][1000 genomes]
rs9327985	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9327986	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:26 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016354	chr5:105752391-106392762	ZNF genes & repeats Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1030118	chr5:106006097-106847949	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv830439	chr5:106192038-106383828	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv882679	chr5:106263197-106399718	Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	esv1841017	chr5:106299280-106325865	Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	n/a
6	esv1795812	chr5:106308008-106326299	Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	n/a
7	esv1799346	chr5:106308008-106326299	Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	n/a
8	esv1815884	chr5:106308008-106326299	Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	n/a
9	esv1843510	chr5:106308008-106326299	Enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	n/a
10	esv1850520	chr5:106308008-106326299	Active TSS Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Weak transcription Strong transcription Bivalent Enhancer	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	n/a
11	esv1815273	chr5:106308008-106326475	Enhancers Transcr. at gene 5' and 3' Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	n/a
12	esv1799129	chr5:106311248-106326299	Weak transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	n/a
13	esv1802235	chr5:106311248-106326299	Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	n/a
14	esv1817753	chr5:106311248-106326299	Weak transcription Transcr. at gene 5' and 3' Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	n/a
15	esv1844969	chr5:106311248-106326299	Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	n/a
16	esv3468515	chr5:106322753-106328351	Enhancers Weak transcription Genic enhancers	n/a	n/a	inside rSNPs	n/a
17	esv3447380	chr5:106323553-106327451	Enhancers Weak transcription Genic enhancers	n/a	n/a	inside rSNPs	n/a
18	esv3468518	chr5:106323878-106327626	Enhancers Weak transcription	n/a	n/a	inside rSNPs	n/a
19	esv3468521	chr5:106324256-106326761	Enhancers Weak transcription	n/a	n/a	inside rSNPs	n/a
20	nsv513254	chr5:106324511-106326574	Weak transcription Enhancers	n/a	n/a	inside rSNPs	n/a
21	esv3468520	chr5:106324614-106326535	Weak transcription Enhancers	n/a	n/a	inside rSNPs	n/a
22	esv3328165	chr5:106324640-106326577	Weak transcription Enhancers	n/a	n/a	inside rSNPs	n/a
23	esv3377079	chr5:106324653-106326559	Weak transcription Enhancers	n/a	n/a	inside rSNPs	n/a
24	esv3496610	chr5:106324665-106326494	Enhancers Weak transcription	n/a	n/a	inside rSNPs	n/a
25	esv3468517	chr5:106324671-106326517	Weak transcription Enhancers	n/a	n/a	inside rSNPs	n/a
26	esv3468522	chr5:106324671-106326518	Weak transcription Enhancers	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106322200-106326800	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr5:106322800-106328200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr5:106323800-106325000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr5:106323800-106336000	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr5:106324600-106325400	Enhancers	H9 Cell Line	embryonic stem cell

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