Variant report

Variant	rs6860946
Chromosome Location	chr5:118226568-118226569
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10519564	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs11954152	0.84[ASN][1000 genomes]
rs11959589	1.00[CHB][hapmap]
rs12109156	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12109252	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs12187606	1.00[JPT][hapmap]
rs1510970	0.82[ASN][1000 genomes]
rs1510971	0.82[CEU][hapmap];1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs17132677	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17144552	1.00[CHB][hapmap]
rs17144715	1.00[JPT][hapmap]
rs17144716	1.00[JPT][hapmap]
rs17144806	1.00[JPT][hapmap]
rs17144824	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17144836	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs17144872	1.00[CHB][hapmap]
rs17144877	1.00[CHB][hapmap]
rs17144885	1.00[CHB][hapmap]
rs17144893	1.00[CHB][hapmap]
rs17381247	0.89[CEU][hapmap]
rs17440213	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs2029036	0.89[CEU][hapmap]
rs2084460	1.00[CHB][hapmap]
rs2217310	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2377127	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs34045550	0.89[ASN][1000 genomes]
rs4392657	1.00[CHB][hapmap]
rs4634381	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4895183	1.00[JPT][hapmap]
rs55671162	0.89[ASN][1000 genomes]
rs56191796	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56406364	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57581390	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59241413	0.88[ASN][1000 genomes]
rs6862297	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs6863802	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs6870923	1.00[CHB][hapmap]
rs6871241	1.00[JPT][hapmap]
rs6874109	1.00[JPT][hapmap]
rs6874399	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6880144	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6892437	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs73239053	0.84[ASN][1000 genomes]
rs73239055	0.88[ASN][1000 genomes]
rs73239065	0.91[EUR][1000 genomes]
rs73792419	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7706037	1.00[CHB][hapmap]
rs7710339	1.00[CHB][hapmap]
rs7721907	1.00[JPT][hapmap]
rs7724403	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs7724753	0.91[CEU][hapmap];1.00[CHB][hapmap]
rs7734815	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7737388	0.82[ASN][1000 genomes]
rs7737716	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882767	chr5:117931730-118385691	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv599562	chr5:118122504-118230640	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv882771	chr5:118170135-118230640	Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv882772	chr5:118173127-118230640	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv882773	chr5:118175640-118241854	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv599563	chr5:118191798-118241854	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:118216600-118244800	Weak transcription	Primary T cells from cord blood	blood
2	chr5:118218800-118240600	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr5:118219200-118227200	Weak transcription	Brain Anterior Caudate	brain
4	chr5:118219400-118227200	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr5:118220000-118226800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr5:118223200-118227000	Weak transcription	Ovary	ovary
7	chr5:118225000-118247000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr5:118225400-118300400	Weak transcription	Primary B cells from cord blood	blood
9	chr5:118226400-118226800	Weak transcription	Pancreatic Islets	Pancreatic Islet

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