Variant report

Variant	rs28392586
Chromosome Location	chr4:94065623-94065624
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10013748	0.84[EUR][1000 genomes]
rs10021088	0.94[EUR][1000 genomes]
rs10021148	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10022163	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1032805	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10440323	0.89[EUR][1000 genomes]
rs10440372	0.95[EUR][1000 genomes]
rs10856899	0.95[EUR][1000 genomes]
rs11097358	0.94[EUR][1000 genomes]
rs1160685	0.94[EUR][1000 genomes]
rs1160686	0.80[EUR][1000 genomes]
rs11940919	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11940921	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12499828	0.84[EUR][1000 genomes]
rs12506519	0.83[EUR][1000 genomes]
rs12511683	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12651392	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13107832	0.91[EUR][1000 genomes]
rs13113786	0.80[EUR][1000 genomes]
rs13115341	0.80[EUR][1000 genomes]
rs13117401	0.81[AMR][1000 genomes]
rs13142145	0.80[AMR][1000 genomes]
rs13149430	0.81[EUR][1000 genomes]
rs1354296	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1503209	0.83[EUR][1000 genomes]
rs1503210	0.92[EUR][1000 genomes]
rs1503211	0.93[EUR][1000 genomes]
rs1503212	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1503213	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1503214	0.80[EUR][1000 genomes]
rs1503216	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1511294	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1511296	0.82[EUR][1000 genomes]
rs1566743	0.81[AMR][1000 genomes]
rs1566744	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2089820	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2271385	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28448801	0.94[EUR][1000 genomes]
rs2870658	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2870681	0.81[AMR][1000 genomes]
rs28707555	0.90[EUR][1000 genomes]
rs2904473	0.84[EUR][1000 genomes]
rs3843409	0.83[EUR][1000 genomes]
rs3857063	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3857064	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3913624	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4274812	0.95[EUR][1000 genomes]
rs4303948	0.89[EUR][1000 genomes]
rs4403008	0.84[EUR][1000 genomes]
rs4475115	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4502650	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4574371	0.80[EUR][1000 genomes]
rs4615143	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4634186	0.84[EUR][1000 genomes]
rs4692978	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4693305	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6829572	0.83[EUR][1000 genomes]
rs6838743	0.80[AMR][1000 genomes]
rs6843540	0.80[EUR][1000 genomes]
rs6844422	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6852692	0.83[EUR][1000 genomes]
rs6853330	0.87[EUR][1000 genomes]
rs7661153	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7672555	0.89[EUR][1000 genomes]
rs7680942	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7683744	0.93[EUR][1000 genomes]
rs7686545	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7699510	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9996056	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9998068	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007177	chr4:93834536-94155349	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv537186	chr4:93834536-94155349	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv931937	chr4:93869856-94155348	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv1011740	chr4:93904073-94073963	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv999660	chr4:93982635-94107714	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1013255	chr4:94027129-94462345	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv1002664	chr4:94045490-94107687	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
8	esv3450455	chr4:94047592-94111856	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv461588	chr4:94049584-94106172	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv594900	chr4:94049584-94106172	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv818254	chr4:94049584-94106172	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
12	esv3335140	chr4:94051629-94067627	Enhancers Weak transcription Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
13	esv3331917	chr4:94063161-94093647	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:94060800-94068600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr4:94064000-94067200	Enhancers	H1 Cell Line	embryonic stem cell
3	chr4:94064000-94067600	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr4:94064400-94066600	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr4:94064400-94069600	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr4:94064600-94066400	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr4:94065000-94065800	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr4:94065200-94065800	Enhancers	Brain Germinal Matrix	brain
9	chr4:94065200-94065800	Enhancers	Fetal Brain Female	brain
10	chr4:94065200-94066200	Enhancers	H9 Cell Line	embryonic stem cell
11	chr4:94065200-94066200	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr4:94065200-94066400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr4:94065200-94069400	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr4:94065400-94065800	Enhancers	Fetal Brain Male	brain
15	chr4:94065400-94066800	Enhancers	ES-I3 Cell Line	embryonic stem cell

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