Variant report

Variant	rs1548256
Chromosome Location	chr10:52268572-52268573
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:52227035..52229845-chr10:52267079..52268728,2	MCF-7	breast:
2	chr10:52264079..52265677-chr10:52268194..52270152,2	K562	blood:
3	chr10:52227177..52229638-chr10:52267267..52268794,2	K562	blood:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1011881	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10740714	0.88[EUR][1000 genomes]
rs10763529	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10826100	0.90[JPT][hapmap]
rs10826118	0.88[CEU][hapmap];0.90[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10826126	0.92[CEU][hapmap];0.86[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11005937	0.90[EUR][1000 genomes]
rs1203415	0.80[JPT][hapmap]
rs12356922	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1569962	0.88[CEU][hapmap];0.90[JPT][hapmap];0.88[EUR][1000 genomes]
rs1569963	0.89[EUR][1000 genomes]
rs1810576	0.83[EUR][1000 genomes]
rs1916566	0.80[JPT][hapmap]
rs2092996	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2099527	0.81[JPT][hapmap]
rs2144862	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2339505	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2339506	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4935712	0.88[CEU][hapmap];0.84[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4935727	1.00[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4935730	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7071603	1.00[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7075289	0.92[CEU][hapmap];0.86[JPT][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7904833	0.90[JPT][hapmap]
rs978588	0.89[CEU][hapmap];0.86[JPT][hapmap];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054775	chr10:51595893-52392361	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1051087	chr10:51886486-52447295	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv916214	chr10:51886486-52458983	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv918212	chr10:51886486-52465482	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv817412	chr10:51911034-52432990	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
6	nsv895391	chr10:52260398-52291608	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	nsv895392	chr10:52263910-52291608	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv467193	chr10:52265265-52289664	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv550855	chr10:52265265-52289664	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52247000-52271200	Weak transcription	Colon Smooth Muscle	Colon
2	chr10:52258000-52271800	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr10:52261800-52271400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr10:52262000-52270800	Weak transcription	HSMMtube	muscle
5	chr10:52262200-52271200	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr10:52262200-52287200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr10:52262400-52268600	Weak transcription	A549	lung
8	chr10:52262400-52270600	Weak transcription	Primary T cells from cord blood	blood
9	chr10:52262400-52271800	Weak transcription	Fetal Stomach	stomach
10	chr10:52262400-52272600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr10:52262600-52271200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr10:52262800-52273000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr10:52263800-52271400	Weak transcription	Placenta	Placenta
14	chr10:52263800-52271800	Weak transcription	Esophagus	oesophagus
15	chr10:52264200-52270800	Weak transcription	K562	blood
16	chr10:52264400-52269600	Weak transcription	Hela-S3	cervix
17	chr10:52264600-52271600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr10:52264800-52271000	Weak transcription	NHEK	skin
19	chr10:52265000-52271200	Enhancers	Brain Cingulate Gyrus	brain
20	chr10:52265000-52272400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
21	chr10:52265200-52268800	Enhancers	Pancreatic Islets	Pancreatic Islet
22	chr10:52265400-52270000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
23	chr10:52265400-52270400	Enhancers	Brain Inferior Temporal Lobe	brain
24	chr10:52265400-52273200	Enhancers	Brain Angular Gyrus	brain
25	chr10:52266200-52272800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr10:52266400-52272800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
27	chr10:52266400-52272800	Enhancers	HepG2	liver
28	chr10:52266600-52268800	Enhancers	Primary T cells fromperipheralblood	blood
29	chr10:52266600-52268800	Enhancers	Fetal Muscle Leg	muscle
30	chr10:52266600-52268800	Enhancers	Pancreas	Pancrea
31	chr10:52266800-52268800	Strong transcription	Primary B cells from cord blood	blood
32	chr10:52266800-52268800	Enhancers	Right Atrium	heart
33	chr10:52266800-52271200	Weak transcription	Rectal Smooth Muscle	rectum
34	chr10:52266800-52282400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr10:52267000-52268800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
36	chr10:52267000-52268800	Enhancers	Psoas Muscle	Psoas
37	chr10:52267000-52269000	Enhancers	Fetal Kidney	kidney
38	chr10:52267000-52269200	Enhancers	Duodenum Mucosa	Duodenum
39	chr10:52267000-52272400	Weak transcription	Thymus	Thymus
40	chr10:52267000-52273400	Enhancers	Brain Substantia Nigra	brain
41	chr10:52267000-52282400	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr10:52267200-52268800	Enhancers	Skeletal Muscle Female	skeletal muscle
43	chr10:52267200-52269200	Enhancers	Primary T killer memory cells from peripheral blood	blood
44	chr10:52267400-52269600	Enhancers	Small Intestine	intestine
45	chr10:52267400-52271000	Weak transcription	Stomach Smooth Muscle	stomach
46	chr10:52267400-52271800	Weak transcription	Lung	lung
47	chr10:52267400-52273600	Enhancers	Brain Hippocampus Middle	brain
48	chr10:52267600-52268800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
49	chr10:52267600-52268800	Flanking Active TSS	GM12878-XiMat	blood
50	chr10:52267600-52269200	Enhancers	Primary T helper naive cells from peripheral blood	blood

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