Variant report

Variant	rs6936915
Chromosome Location	chr6:57128259-57128260
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	chr6:57125298..57127143-chr6:57127818..57130213,2	K562	blood:
2	chr6:57126469..57129335-chr6:57130714..57132915,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs1013146	0.83[ASN][1000 genomes]
rs1013147	0.83[ASN][1000 genomes]
rs530617	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6459184	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6920777	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7747096	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7760349	0.85[CHB][hapmap];0.84[CHD][hapmap]
rs9349850	0.80[ASN][1000 genomes]
rs9349851	0.94[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];0.96[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv934026	chr6:56382056-57184218	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv533050	chr6:56504480-57297586	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1034095	chr6:57102042-57162808	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv528165	chr6:57104266-57130574	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6936915	RAB23	cis	multi-tissue	Pritchard

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:57123400-57130200	Weak transcription	Fetal Brain Male	brain
2	chr6:57123800-57130600	Enhancers	Colon Smooth Muscle	Colon
3	chr6:57125200-57133200	Enhancers	Rectal Smooth Muscle	rectum
4	chr6:57125600-57128800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr6:57126200-57128400	Enhancers	Skeletal Muscle Female	skeletal muscle
6	chr6:57126400-57128800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr6:57126400-57128800	Enhancers	Fetal Stomach	stomach
8	chr6:57126400-57129200	Enhancers	NHLF	lung
9	chr6:57126400-57130800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr6:57126600-57128400	Enhancers	Adipose Nuclei	Adipose
11	chr6:57126600-57128400	Enhancers	Skeletal Muscle Male	skeletal muscle
12	chr6:57126600-57128600	Enhancers	HSMMtube	muscle
13	chr6:57126600-57128800	Enhancers	HSMM	muscle
14	chr6:57126600-57129000	Enhancers	NH-A	brain
15	chr6:57127000-57128800	Enhancers	Fetal Lung	lung
16	chr6:57127200-57128400	Enhancers	Aorta	Aorta
17	chr6:57127200-57128800	Enhancers	Duodenum Smooth Muscle	Duodenum
18	chr6:57127200-57128800	Enhancers	Fetal Muscle Leg	muscle
19	chr6:57127400-57128800	Enhancers	HUVEC	blood vessel
20	chr6:57127400-57128800	Enhancers	NHEK	skin
21	chr6:57127800-57129200	Enhancers	Stomach Smooth Muscle	stomach
22	chr6:57127800-57130600	Enhancers	NHDF-Ad	bronchial
23	chr6:57127800-57130800	Weak transcription	Ovary	ovary
24	chr6:57127800-57132200	Enhancers	Muscle Satellite Cultured Cells	--
25	chr6:57128000-57128400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr6:57128000-57128400	Enhancers	Brain Anterior Caudate	brain
27	chr6:57128000-57128600	Enhancers	Small Intestine	intestine
28	chr6:57128200-57128400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr6:57128200-57128600	Enhancers	Osteobl	bone
30	chr6:57128200-57128800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr6:57128200-57129000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr6:57128200-57129200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr6:57128200-57129200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr6:57128200-57130600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links