Variant report

Variant	rs1180657
Chromosome Location	chr10:61651701-61651702
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:61642094..61644181-chr10:61649311..61651720,2	K562	blood:
2	chr10:61649784..61652594-chr10:61664669..61667678,3	MCF-7	breast:
3	chr10:61650190..61652371-chr10:61798781..61801501,2	MCF-7	breast:
4	chr10:61647386..61652939-chr10:61663740..61669349,9	K562	blood:
5	chr10:61648268..61650504-chr10:61650711..61652681,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000108091	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10761422	0.88[CHB][hapmap]
rs1171810	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1171813	0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1171815	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1171816	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1171817	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1171818	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1171819	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1171820	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1171824	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1171825	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1171826	0.85[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1171828	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1180658	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1184089	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12776262	0.94[CHB][hapmap]
rs1664257	0.80[GIH][hapmap]
rs1664258	0.80[GIH][hapmap]
rs1664262	0.80[GIH][hapmap]
rs1684895	0.88[CHB][hapmap]
rs1684898	0.80[GIH][hapmap]
rs1684900	0.87[GIH][hapmap]
rs2440910	0.80[GIH][hapmap]
rs2450468	0.80[GIH][hapmap]
rs2456712	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3099368	0.96[ASN][1000 genomes]
rs723213	0.93[CHB][hapmap]
rs895243	0.80[GIH][hapmap]
rs9332447	0.83[CHB][hapmap]

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	esv1795420	chr10:61637271-61669227	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
2	esv1800316	chr10:61639599-61700473	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:61625000-61655400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr10:61637600-61653600	Weak transcription	NHDF-Ad	bronchial
3	chr10:61637800-61653600	Weak transcription	NH-A	brain
4	chr10:61638400-61653600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr10:61638400-61653600	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr10:61638400-61653600	Weak transcription	Osteobl	bone
7	chr10:61638600-61653200	Weak transcription	HSMMtube	muscle
8	chr10:61641200-61653600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr10:61641400-61652000	Weak transcription	Fetal Heart	heart
10	chr10:61641600-61655200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr10:61641600-61664200	Weak transcription	A549	lung
12	chr10:61641800-61655400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr10:61643000-61659400	Weak transcription	Hela-S3	cervix
14	chr10:61644600-61655200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr10:61645800-61659400	Weak transcription	Fetal Brain Male	brain
16	chr10:61647000-61655000	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr10:61647200-61653600	Weak transcription	Right Ventricle	heart
18	chr10:61647200-61655400	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr10:61647400-61652000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr10:61647800-61651800	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr10:61648000-61653600	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr10:61648200-61652000	Strong transcription	Primary T cells from cord blood	blood
23	chr10:61648200-61655200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr10:61648400-61654000	Weak transcription	Psoas Muscle	Psoas
25	chr10:61648600-61652200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr10:61648600-61657600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr10:61649000-61651800	Weak transcription	Colonic Mucosa	Colon
28	chr10:61649000-61653200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr10:61649000-61653600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
30	chr10:61649000-61654000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
31	chr10:61649200-61652600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr10:61649200-61653800	Enhancers	Primary monocytes fromperipheralblood	blood
33	chr10:61649200-61654000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr10:61649600-61652000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr10:61649600-61652200	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr10:61649800-61653200	Weak transcription	Placenta Amnion	Placenta Amnion
37	chr10:61649800-61664200	Weak transcription	Placenta	Placenta
38	chr10:61650000-61653000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr10:61650000-61653600	Weak transcription	Primary T helper cells PMA-I stimulated	--
40	chr10:61650000-61653600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr10:61650000-61653600	Weak transcription	Fetal Lung	lung
42	chr10:61650000-61659600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr10:61650000-61659800	Weak transcription	Thymus	Thymus
44	chr10:61650200-61652200	Weak transcription	H1 Cell Line	embryonic stem cell
45	chr10:61650200-61652200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr10:61650200-61653200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr10:61650200-61653600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr10:61650200-61653600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr10:61650200-61653600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr10:61650200-61653600	Weak transcription	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links