Variant report

Variant	rs3800379
Chromosome Location	chr6:35411090-35411091
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:35410187..35412214-chr6:35434908..35436495,2	K562	blood:

Variant related genes	Relation type
ENSG00000198755	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1076655	0.85[ASN][1000 genomes]
rs11756089	0.85[ASN][1000 genomes]
rs11758353	0.84[ASN][1000 genomes]
rs2076171	0.84[ASN][1000 genomes]
rs41270066	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs41270070	0.92[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs45454199	0.84[ASN][1000 genomes]
rs45464000	0.89[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs45472598	0.84[ASN][1000 genomes]
rs45484291	1.00[EUR][1000 genomes]
rs45532932	1.00[EUR][1000 genomes]
rs45614138	1.00[EUR][1000 genomes]
rs45624039	0.84[ASN][1000 genomes]
rs4711417	0.84[ASN][1000 genomes]
rs4713863	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713870	0.84[ASN][1000 genomes]
rs4713871	0.84[ASN][1000 genomes]
rs4713872	0.85[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6935950	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6936165	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830641	chr6:35282534-35440603	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	57 gene(s)	inside rSNPs	diseases
2	nsv602909	chr6:35356640-35423489	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv470812	chr6:35374461-35418118	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv528351	chr6:35377922-35465786	Flanking Active TSS Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	69 gene(s)	inside rSNPs	diseases
5	nsv885799	chr6:35378778-35442397	Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	54 gene(s)	inside rSNPs	diseases
6	nsv462908	chr6:35378778-35457396	Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases
7	nsv602910	chr6:35378778-35457396	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases
8	nsv519370	chr6:35378778-35537406	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	72 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	chr6:35400600-35413800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr6:35403400-35419400	Weak transcription	Right Atrium	heart
3	chr6:35404800-35413800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:35406800-35419200	Weak transcription	Colon Smooth Muscle	Colon
5	chr6:35410200-35411400	Enhancers	NHEK	skin
6	chr6:35410400-35411600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr6:35410600-35411200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr6:35410600-35411400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr6:35410600-35411800	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr6:35410800-35411400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr6:35410800-35411600	Enhancers	HMEC	breast
12	chr6:35411000-35411400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr6:35411000-35411400	Enhancers	Cortex derived primary cultured neurospheres	brain
14	chr6:35411000-35411400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr6:35411000-35411400	Enhancers	Esophagus	oesophagus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links