Variant report

Variant	rs237015
Chromosome Location	chr6:149745566-149745567
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:149379361..149382289-chr6:149745014..149748004,4	MCF-7	breast:
2	chr6:149745176..149748304-chr6:149748732..149751749,4	MCF-7	breast:
3	chr6:149740980..149743677-chr6:149744800..149747765,2	K562	blood:
4	chr6:149744819..149747181-chr6:149748180..149751163,2	MCF-7	breast:
5	chr6:149352125..149354322-chr6:149744702..149746498,2	MCF-7	breast:
6	chr6:149348466..149350718-chr6:149745093..149747617,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000236591	Chromatin interaction

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs112225	0.82[JPT][hapmap]
rs12110948	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs173140	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2031450	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs236997	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs236998	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs236999	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs237000	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs237004	0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs237006	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs237007	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs237008	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs237013	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs237014	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs237017	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs237020	0.83[CHB][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs237022	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs237027	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs237030	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs237031	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs237032	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs237033	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs237036	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs237037	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs365469	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs376269	0.82[JPT][hapmap]
rs376757	0.82[JPT][hapmap]
rs377454	0.83[JPT][hapmap]
rs378991	0.82[JPT][hapmap]
rs382720	0.82[JPT][hapmap]
rs388335	0.83[JPT][hapmap]
rs389996	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs394375	0.83[JPT][hapmap]
rs395037	0.82[JPT][hapmap]
rs408451	0.82[JPT][hapmap]
rs409196	0.81[JPT][hapmap]
rs414956	0.80[ASN][1000 genomes]
rs416262	0.82[ASN][1000 genomes]
rs421037	0.81[ASN][1000 genomes]
rs425278	1.00[JPT][hapmap]
rs425540	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs430192	0.82[ASN][1000 genomes]
rs431362	0.83[JPT][hapmap]
rs437931	0.82[JPT][hapmap]
rs439495	0.82[JPT][hapmap]
rs452586	0.82[JPT][hapmap]
rs473864	0.89[EUR][1000 genomes]
rs474587	0.89[EUR][1000 genomes]
rs474726	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs480670	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs483877	1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes]
rs484969	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs500860	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes]
rs505765	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs506573	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs506779	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs520551	0.89[EUR][1000 genomes]
rs520683	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs524092	0.89[EUR][1000 genomes]
rs537843	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs538706	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs543711	0.89[EUR][1000 genomes]
rs548083	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs548925	0.87[EUR][1000 genomes]
rs551627	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs558044	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs559848	0.85[CHB][hapmap]
rs567816	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs569730	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs573684	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs576022	0.85[CHB][hapmap]
rs579666	0.89[EUR][1000 genomes]
rs580499	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs602010	0.82[JPT][hapmap]
rs602094	0.86[JPT][hapmap]
rs6916134	0.92[EUR][1000 genomes]
rs6926840	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7742990	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7752947	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs786751	0.81[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv522875	chr6:149643709-149762537	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv517606	chr6:149744632-149755695	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv470866	chr6:149744632-149806552	Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149709600-149750200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:149744000-149745600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:149744000-149746800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:149744200-149745600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr6:149744400-149745600	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr6:149744400-149745600	Enhancers	Ovary	ovary
7	chr6:149744600-149745600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr6:149744600-149745600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr6:149744600-149745600	Enhancers	HSMM	muscle
10	chr6:149744600-149746400	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr6:149744800-149745600	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr6:149744800-149745600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr6:149744800-149745600	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr6:149744800-149745600	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr6:149744800-149745600	Enhancers	Fetal Muscle Leg	muscle
16	chr6:149744800-149745600	Flanking Bivalent TSS/Enh	HepG2	liver
17	chr6:149744800-149745800	Enhancers	Fetal Stomach	stomach
18	chr6:149745000-149745600	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr6:149745000-149745600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr6:149745000-149745600	Enhancers	iPS-18 Cell Line	embryonic stem cell
21	chr6:149745000-149745600	Enhancers	iPS-20b Cell Line	embryonic stem cell
22	chr6:149745000-149745600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr6:149745000-149745600	Enhancers	Colon Smooth Muscle	Colon
24	chr6:149745200-149745600	Enhancers	H1 Cell Line	embryonic stem cell
25	chr6:149745200-149745600	Enhancers	Brain Angular Gyrus	brain
26	chr6:149745200-149745600	Flanking Active TSS	Brain Anterior Caudate	brain
27	chr6:149745200-149745600	Flanking Active TSS	Brain Cingulate Gyrus	brain
28	chr6:149745200-149745600	Flanking Active TSS	Brain Hippocampus Middle	brain
29	chr6:149745200-149745600	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
30	chr6:149745200-149745600	Flanking Active TSS	Brain Substantia Nigra	brain
31	chr6:149745200-149745600	Bivalent Enhancer	Fetal Intestine Small	intestine
32	chr6:149745200-149745600	Enhancers	Fetal Lung	lung
33	chr6:149745200-149745600	Enhancers	Rectal Smooth Muscle	rectum
34	chr6:149745200-149745600	Enhancers	Skeletal Muscle Female	skeletal muscle
35	chr6:149745200-149745600	Active TSS	NH-A	brain
36	chr6:149745200-149745600	Enhancers	NHDF-Ad	bronchial
37	chr6:149745200-149746800	Enhancers	Placenta	Placenta
38	chr6:149745400-149745600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr6:149745400-149745600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr6:149745400-149745600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr6:149745400-149745600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr6:149745400-149745600	Enhancers	Adipose Nuclei	Adipose
43	chr6:149745400-149745600	Enhancers	Aorta	Aorta
44	chr6:149745400-149745600	Enhancers	Liver	Liver
45	chr6:149745400-149745600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
46	chr6:149745400-149745600	Enhancers	Duodenum Smooth Muscle	Duodenum
47	chr6:149745400-149745600	Bivalent Enhancer	Stomach Mucosa	stomach
48	chr6:149745400-149745600	Flanking Active TSS	Stomach Smooth Muscle	stomach
49	chr6:149745400-149745600	Enhancers	Osteobl	bone
50	chr6:149745400-149745800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links