Variant report

Variant	rs10815428
Chromosome Location	chr9:6400030-6400031
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	chr9:6398344..6401128-chr9:6407574..6409551,2	K562	blood:
2	chr1:11968667..11972683-chr9:6399248..6402268,5	K562	blood:

Variant related genes	Relation type
ENSG00000201801	Chromatin interaction

Extended variants
information (count: 107 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10115362	0.99[ASN][1000 genomes]
rs10115883	0.89[JPT][hapmap]
rs10122116	0.95[JPT][hapmap]
rs10124572	0.81[ASN][1000 genomes]
rs10733529	0.86[ASN][1000 genomes]
rs10739097	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10739098	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10739099	0.93[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10739100	0.86[ASN][1000 genomes]
rs10739102	0.83[ASN][1000 genomes]
rs10758783	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10758784	0.94[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs10758785	0.94[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs10758786	0.86[ASN][1000 genomes]
rs10758787	0.86[ASN][1000 genomes]
rs10758788	0.94[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs10758789	0.94[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs10758790	0.94[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs10758792	0.85[ASN][1000 genomes]
rs10815411	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10815412	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10975552	0.84[ASN][1000 genomes]
rs10975553	0.83[ASN][1000 genomes]
rs10975557	0.85[ASN][1000 genomes]
rs10975579	0.84[ASN][1000 genomes]
rs10975582	0.84[ASN][1000 genomes]
rs10975583	0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10975585	0.87[ASN][1000 genomes]
rs10975595	1.00[JPT][hapmap]
rs10975605	0.89[JPT][hapmap]
rs1156747	0.94[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs11790625	0.82[ASN][1000 genomes]
rs11791651	0.89[JPT][hapmap]
rs11795355	0.90[JPT][hapmap]
rs12346455	0.89[JPT][hapmap]
rs12347573	0.89[JPT][hapmap]
rs12351293	0.81[ASN][1000 genomes]
rs12376117	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1322171	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13283381	0.84[JPT][hapmap]
rs13291472	0.90[JPT][hapmap]
rs13292799	0.80[ASN][1000 genomes]
rs13298500	0.82[JPT][hapmap]
rs1381035	1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs1381036	0.84[ASN][1000 genomes]
rs1381037	0.83[ASN][1000 genomes]
rs1575263	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1575264	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16924328	0.90[JPT][hapmap]
rs16924434	0.83[ASN][1000 genomes]
rs16924562	0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs16924624	0.90[JPT][hapmap]
rs16924626	0.95[JPT][hapmap]
rs16924631	0.94[JPT][hapmap]
rs16924634	0.84[JPT][hapmap]
rs1824537	0.83[ASN][1000 genomes]
rs1870696	0.94[JPT][hapmap]
rs1903419	0.82[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2065074	0.83[ASN][1000 genomes]
rs2065075	0.87[ASN][1000 genomes]
rs2169282	0.84[ASN][1000 genomes]
rs2169283	0.88[CHB][hapmap];0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs2169286	0.94[CHB][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs2381444	0.84[ASN][1000 genomes]
rs3739654	0.89[JPT][hapmap]
rs4384035	0.82[ASN][1000 genomes]
rs4740844	0.94[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs4740845	0.86[ASN][1000 genomes]
rs4742181	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4742199	0.87[ASN][1000 genomes]
rs4742201	0.94[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs4742202	0.94[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs55960819	0.81[ASN][1000 genomes]
rs56218473	0.85[ASN][1000 genomes]
rs56396114	0.81[ASN][1000 genomes]
rs56939673	0.84[ASN][1000 genomes]
rs6477087	0.89[JPT][hapmap]
rs67852216	0.96[ASN][1000 genomes]
rs7022186	0.84[ASN][1000 genomes]
rs7027302	0.81[ASN][1000 genomes]
rs7029772	0.84[JPT][hapmap]
rs719724	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs719725	0.87[ASN][1000 genomes]
rs73401679	0.80[ASN][1000 genomes]
rs7852539	0.90[JPT][hapmap]
rs7853059	0.80[ASN][1000 genomes]
rs7853834	0.80[ASN][1000 genomes]
rs7857628	0.94[CHB][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs7860427	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7860966	0.82[ASN][1000 genomes]
rs7861073	0.82[ASN][1000 genomes]
rs7861559	0.82[ASN][1000 genomes]
rs7865955	0.85[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948847	chr9:5712626-6417677	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv1031086	chr9:5806949-6630686	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv539967	chr9:5806949-6630686	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	nsv933124	chr9:6099101-6644738	Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Enhancers Active TSS ZNF genes & repeats 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	28 gene(s)	inside rSNPs	diseases
5	nsv1029000	chr9:6188652-6687205	Enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
6	nsv1031459	chr9:6216913-6657192	Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
7	nsv948562	chr9:6222553-6684955	Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
8	nsv1024324	chr9:6308178-6408875	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv1032350	chr9:6328167-6630686	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
10	nsv1019222	chr9:6328242-6402856	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv892160	chr9:6364449-6506038	Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
12	nsv892161	chr9:6364449-6523056	Enhancers Bivalent/Poised TSS Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
13	nsv831497	chr9:6377501-6612402	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
14	nsv1023419	chr9:6393886-6415025	Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:6398600-6400200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

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