Variant report

Variant	rs4713618
Chromosome Location	chr6:11550364-11550365
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	chr6:11537825..11540246-chr6:11549299..11552275,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000205269	Chromatin interaction

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10807114	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10807115	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10947398	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11751884	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11752836	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11755780	0.80[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11756371	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12192094	0.80[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.91[TSI][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12194771	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12198765	0.83[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12198774	0.80[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.91[TSI][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12198950	0.80[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.91[TSI][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12200391	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12200454	0.80[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.91[TSI][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12528839	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs145176	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2025184	0.80[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.91[TSI][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2025185	0.95[CHB][hapmap];0.87[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs211510	0.88[ASN][1000 genomes]
rs2758307	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2807964	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs295051	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs295059	0.89[ASN][1000 genomes]
rs295060	0.88[ASN][1000 genomes]
rs295061	0.88[ASN][1000 genomes]
rs295062	0.87[ASN][1000 genomes]
rs295063	0.87[ASN][1000 genomes]
rs295064	0.87[ASN][1000 genomes]
rs3857556	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711306	0.80[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.91[TSI][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4713593	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4713594	0.80[CEU][hapmap];0.85[CHB][hapmap];0.87[JPT][hapmap];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs493183	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs505685	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs586117	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs588062	0.90[CHB][hapmap];0.84[CHD][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs594164	0.86[ASN][1000 genomes]
rs595877	0.84[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.85[TSI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61570488	0.80[ASN][1000 genomes]
rs616729	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs651001	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs681483	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs6901328	0.80[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.91[TSI][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6907796	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6908807	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6913697	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6914208	0.84[EUR][1000 genomes]
rs6914420	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6915153	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6915366	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6916089	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6930371	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6932324	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6936326	0.80[CEU][hapmap]
rs6940859	0.80[EUR][1000 genomes]
rs6941011	0.80[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6941700	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7749662	0.84[ASN][1000 genomes]
rs7770004	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9348892	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9348895	0.80[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9348896	0.80[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.91[TSI][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9357154	0.80[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9366806	1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9380310	0.80[EUR][1000 genomes]
rs9380311	0.80[ASN][1000 genomes]
rs9380315	0.80[ASN][1000 genomes]
rs9394102	0.92[CEU][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs9394117	0.80[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9394146	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394154	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[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	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv432848	chr6:11371614-11560114	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv600989	chr6:11509323-11581990	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
5	nsv1015234	chr6:11545582-11583516	Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11540200-11552000	Weak transcription	Brain Cingulate Gyrus	brain
2	chr6:11540400-11551600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr6:11540400-11552600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:11540600-11566600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr6:11540800-11551200	Weak transcription	Brain Substantia Nigra	brain
6	chr6:11541400-11556000	Enhancers	Primary neutrophils fromperipheralblood	blood
7	chr6:11544400-11554400	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr6:11545600-11554600	Weak transcription	Fetal Brain Female	brain
9	chr6:11545800-11552400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr6:11546000-11551200	Weak transcription	Brain Anterior Caudate	brain
11	chr6:11548000-11566600	Weak transcription	Placenta	Placenta
12	chr6:11548200-11565800	Weak transcription	Primary B cells from cord blood	blood
13	chr6:11549200-11551000	Enhancers	Monocytes-CD14+_RO01746	blood
14	chr6:11550200-11551200	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr6:11550200-11551400	Weak transcription	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links