Variant report

Variant	rs6581094
Chromosome Location	chr12:56828235-56828236
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:56827122..56829878-chr12:56841273..56843034,2	K562	blood:
2	chr12:56827122..56829045-chr12:56841534..56843254,2	K562	blood:
3	chr12:56822652..56825440-chr12:56826131..56828789,2	MCF-7	breast:
4	chr12:56816330..56820698-chr12:56827397..56831177,4	K562	blood:
5	chr12:56827605..56830208-chr12:56835234..56837438,3	K562	blood:
6	chr12:56827738..56829538-chr12:56829816..56833638,4	K562	blood:

Variant related genes	Relation type
ENSG00000111602	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10876889	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10876890	0.92[CEU][hapmap];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11171847	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11171848	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11171849	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11171850	0.96[CEU][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11171852	0.91[CEU][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11171856	0.89[ASN][1000 genomes]
rs11610921	0.92[CEU][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11833581	0.95[CEU][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11833583	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12299614	0.95[CEU][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12313431	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12316810	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12815993	0.90[ASN][1000 genomes]
rs1976294	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2279665	0.95[CEU][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2291738	0.87[CEU][hapmap];0.83[ASN][1000 genomes]
rs2291739	0.88[CEU][hapmap];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2371455	0.88[ASN][1000 genomes]
rs2638304	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2657883	0.82[ASN][1000 genomes]
rs2939303	0.82[ASN][1000 genomes]
rs34520497	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34644700	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35634983	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3782237	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3809125	0.86[ASN][1000 genomes]
rs6581095	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67027355	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs703829	0.95[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7302060	0.81[EUR][1000 genomes]
rs7305989	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7312888	0.95[CEU][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs774026	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs774027	0.96[CEU][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs774031	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs774032	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs774033	0.95[CEU][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs774034	0.96[CEU][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs774035	0.96[CEU][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs774036	0.95[CEU][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs774037	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs774039	0.95[CEU][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs774047	0.95[CEU][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7977477	0.96[CEU][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs812278	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs812279	0.86[CEU][hapmap];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043622	chr12:56571476-56974448	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	diseases
2	nsv541500	chr12:56571476-56974448	Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:56799400-56831600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr12:56806000-56831200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr12:56807200-56829000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr12:56809200-56828600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr12:56809800-56829000	Strong transcription	Dnd41	blood
6	chr12:56810000-56828800	Weak transcription	Small Intestine	intestine
7	chr12:56810000-56829400	Weak transcription	Brain Substantia Nigra	brain
8	chr12:56810200-56829400	Weak transcription	HSMMtube	muscle
9	chr12:56811800-56830400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr12:56811800-56842400	Weak transcription	Colon Smooth Muscle	Colon
11	chr12:56813000-56842600	Weak transcription	Fetal Heart	heart
12	chr12:56813200-56841200	Weak transcription	Fetal Kidney	kidney
13	chr12:56813800-56842400	Weak transcription	Right Atrium	heart
14	chr12:56816200-56842400	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr12:56816600-56836400	Weak transcription	HMEC	breast
16	chr12:56816800-56828600	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr12:56817400-56829000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr12:56817600-56829400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr12:56818600-56829600	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr12:56818800-56833200	Weak transcription	Left Ventricle	heart
21	chr12:56819200-56829000	Weak transcription	Stomach Smooth Muscle	stomach
22	chr12:56819400-56829400	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr12:56819600-56828800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr12:56820200-56829400	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr12:56822200-56829200	Weak transcription	Brain Hippocampus Middle	brain
26	chr12:56822600-56828600	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr12:56822600-56836000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr12:56822800-56829000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr12:56822800-56829200	Weak transcription	Ovary	ovary
30	chr12:56822800-56836200	Weak transcription	Colonic Mucosa	Colon
31	chr12:56822800-56838000	Weak transcription	HUVEC	blood vessel
32	chr12:56824200-56828800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
33	chr12:56824200-56829200	Weak transcription	Skeletal Muscle Female	skeletal muscle
34	chr12:56824200-56830000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr12:56824400-56829800	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr12:56824800-56831400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr12:56825000-56833000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
38	chr12:56825400-56842000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr12:56825800-56836600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr12:56826200-56828400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr12:56826200-56842400	Weak transcription	NH-A	brain
42	chr12:56826400-56828800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr12:56826400-56841800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr12:56826400-56842200	Weak transcription	HSMM	muscle
45	chr12:56826400-56842400	Weak transcription	NHDF-Ad	bronchial
46	chr12:56827000-56829600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr12:56827200-56829200	Weak transcription	Aorta	Aorta
48	chr12:56827200-56829800	Weak transcription	Esophagus	oesophagus
49	chr12:56827200-56831200	Weak transcription	Brain Anterior Caudate	brain
50	chr12:56827200-56842600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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