Variant report

Variant	rs6424956
Chromosome Location	chr1:172469707-172469708
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:172444481..172448040-chr1:172465983..172470352,4	MCF-7	breast:
2	chr1:172443498..172448130-chr1:172464565..172470217,6	MCF-7	breast:
3	chr1:172466607..172473945-chr1:172474467..172485611,18	MCF-7	breast:
4	chr1:172468358..172470572-chr1:172471626..172474373,2	MCF-7	breast:
5	chr1:172468168..172471108-chr1:172473106..172474837,2	K562	blood:
6	chr1:172418892..172420549-chr1:172469150..172470945,2	MCF-7	breast:
7	chr1:172464666..172471866-chr1:172497727..172502912,19	MCF-7	breast:
8	chr1:172464396..172473941-chr1:172479690..172484856,11	MCF-7	breast:
9	chr1:172418873..172420549-chr1:172468887..172471154,2	MCF-7	breast:
10	chr1:172451102..172453458-chr1:172467272..172470611,3	MCF-7	breast:
11	chr1:172469701..172471621-chr1:172497308..172500120,2	K562	blood:
12	chr1:172464975..172470841-chr1:172497747..172503666,11	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000094975	Chromatin interaction
ENSG00000180999	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10157501	0.82[ASN][1000 genomes]
rs10911830	0.94[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.89[MKK][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs10911833	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10911843	0.87[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10911859	0.87[ASN][1000 genomes]
rs10911862	0.87[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10911875	0.82[ASN][1000 genomes]
rs10911920	0.81[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1159378	0.82[ASN][1000 genomes]
rs11799659	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12025433	0.82[ASN][1000 genomes]
rs12073872	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs12093274	0.82[ASN][1000 genomes]
rs12118647	0.99[ASN][1000 genomes]
rs12120798	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs12130435	0.86[ASN][1000 genomes]
rs12145007	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs2239816	0.87[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2239817	0.81[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2285143	0.84[ASN][1000 genomes]
rs2472549	0.81[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs3754426	0.87[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs56410307	0.95[ASN][1000 genomes]
rs6424954	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6424955	0.94[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs6424965	0.81[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6657023	0.99[ASN][1000 genomes]
rs6679222	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6688929	0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.99[ASN][1000 genomes]
rs6691320	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6691528	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6694111	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6697618	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6698031	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6699802	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6702420	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7514814	0.81[CHB][hapmap];0.90[CHD][hapmap];0.82[JPT][hapmap]
rs7517856	0.86[ASN][1000 genomes]
rs7532580	0.81[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap]
rs9943237	0.87[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172464800-172471000	Enhancers	Placenta Amnion	Placenta Amnion
2	chr1:172465600-172470000	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr1:172465800-172470800	Enhancers	Primary neutrophils fromperipheralblood	blood
4	chr1:172466000-172470000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr1:172466200-172470800	Weak transcription	Esophagus	oesophagus
6	chr1:172466800-172476400	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr1:172466800-172477200	Weak transcription	Left Ventricle	heart
8	chr1:172468200-172470400	Enhancers	Fetal Intestine Large	intestine
9	chr1:172468400-172470000	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr1:172468600-172470400	Enhancers	Fetal Intestine Small	intestine
11	chr1:172468800-172469800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr1:172468800-172469800	Enhancers	Placenta	Placenta
13	chr1:172468800-172469800	Enhancers	NHEK	skin
14	chr1:172468800-172470000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr1:172468800-172470000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr1:172468800-172470000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr1:172468800-172470000	Enhancers	Pancreas	Pancrea
18	chr1:172468800-172470200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr1:172469000-172470800	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr1:172469400-172470000	Enhancers	HepG2	liver
21	chr1:172469600-172470000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr1:172469600-172472000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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