Variant report

Variant	rs1656367
Chromosome Location	chr3:158257120-158257121
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:158255471..158257626-chr3:158257738..158259258,2	MCF-7	breast:
2	chr3:158251511..158254019-chr3:158254679..158258766,4	K562	blood:
3	chr3:158256043..158258049-chr3:158360702..158362682,2	K562	blood:
4	chr3:158256896..158258122-chr3:158508181..158509486,5	MCF-7	breast:
5	chr3:156877180..156879858-chr3:158256937..158259532,2	MCF-7	breast:
6	chr3:158256966..158258990-chr3:158506924..158509258,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168827	Chromatin interaction
ENSG00000163660	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11915781	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1193519	0.96[EUR][1000 genomes]
rs1369561	1.00[CEU][hapmap]
rs1435637	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1520657	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs1625612	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1656360	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1656362	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1656371	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1714505	1.00[CEU][hapmap]
rs1714508	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1714510	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1714512	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1714513	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1714517	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1714526	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2956471	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6441191	0.98[EUR][1000 genomes]
rs6788695	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs73170371	0.93[EUR][1000 genomes]
rs827105	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs827107	0.98[EUR][1000 genomes]
rs827115	0.96[EUR][1000 genomes]
rs827116	0.96[EUR][1000 genomes]
rs827117	0.96[EUR][1000 genomes]
rs827119	0.96[EUR][1000 genomes]
rs827133	0.96[EUR][1000 genomes]
rs827183	0.96[EUR][1000 genomes]
rs827189	0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002378	chr3:157715428-158673414	Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS 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
2	nsv1014381	chr3:158070451-158350118	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1004124	chr3:158146715-158808638	Genic enhancers Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv877690	chr3:158184263-158296916	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv2763312	chr3:158193512-158420588	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
6	nsv916167	chr3:158240540-158320581	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv877691	chr3:158245883-158359667	Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1656367	RSRC1	cis	lesional skin	skin_eQTL
rs1656367	RSRC1	Cis_1M	lymphoblastoid	RTeQTL
rs1656367	RSRC1	cis	uninvolved skin	skin_eQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:158246600-158261000	Weak transcription	Primary T helper cells fromperipheralblood	blood
2	chr3:158249400-158264400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:158252600-158267400	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr3:158253800-158261000	Weak transcription	Primary B cells from peripheral blood	blood
5	chr3:158255200-158263800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr3:158255600-158260600	Weak transcription	Dnd41	blood
7	chr3:158256200-158264600	Weak transcription	Primary T cells from cord blood	blood
8	chr3:158256600-158280000	Weak transcription	K562	blood
9	chr3:158257000-158262400	Weak transcription	Primary B cells from cord blood	blood

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