Variant report

Variant	rs9425600
Chromosome Location	chr1:172376809-172376810
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:172355369..172358072-chr1:172375699..172377577,3	K562	blood:
2	chr1:172369690..172372664-chr1:172375281..172378143,4	K562	blood:
3	chr1:172355369..172357574-chr1:172375725..172377577,2	K562	blood:
4	chr1:172375496..172379926-chr1:172385834..172389157,4	MCF-7	breast:
5	chr1:172368576..172370246-chr1:172375053..172377189,2	MCF-7	breast:
6	chr1:172374826..172377072-chr1:172379296..172381158,2	K562	blood:
7	chr1:172375080..172377072-chr1:172379194..172380796,2	K562	blood:

Variant related genes	Relation type
ENSG00000197959	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1063412	0.95[CHB][hapmap];0.83[CHD][hapmap];0.81[ASN][1000 genomes]
rs10752946	1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs10752957	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10798005	1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11484605	0.93[ASN][1000 genomes]
rs12076560	0.81[ASN][1000 genomes]
rs13932	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.81[ASN][1000 genomes]
rs2157450	0.94[CEU][hapmap]
rs2213740	0.94[CEU][hapmap]
rs2269613	1.00[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs2269614	1.00[CEU][hapmap];0.95[CHB][hapmap];0.81[ASN][1000 genomes]
rs2269615	1.00[CHB][hapmap];0.83[CHD][hapmap];0.81[ASN][1000 genomes]
rs2269616	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2285170	0.95[CHB][hapmap]
rs2285171	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap]
rs2285172	0.81[ASN][1000 genomes]
rs2285173	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.81[ASN][1000 genomes]
rs2285174	1.00[CEU][hapmap];0.95[CHB][hapmap];0.81[ASN][1000 genomes]
rs2285175	1.00[CEU][hapmap];0.95[CHB][hapmap];0.81[ASN][1000 genomes]
rs2285176	0.95[CHB][hapmap];0.81[ASN][1000 genomes]
rs2301455	0.95[CHB][hapmap];0.81[ASN][1000 genomes]
rs2422141	0.93[ASN][1000 genomes]
rs3213563	0.81[ASN][1000 genomes]
rs3937046	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.80[ASN][1000 genomes]
rs4916186	0.96[ASN][1000 genomes]
rs4916258	0.81[ASN][1000 genomes]
rs6424923	0.95[CHB][hapmap];0.81[ASN][1000 genomes]
rs6658843	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs6673869	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.81[ASN][1000 genomes]
rs6674073	1.00[CEU][hapmap];0.95[CHB][hapmap];0.81[ASN][1000 genomes]
rs6680035	0.94[CEU][hapmap]
rs6689377	0.81[ASN][1000 genomes]
rs6692458	0.83[CEU][hapmap]
rs6695139	0.83[CEU][hapmap]
rs6702667	1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs7411767	0.93[ASN][1000 genomes]
rs7516301	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs7550016	1.00[CEU][hapmap]
rs9286858	0.94[CEU][hapmap]
rs929098	0.81[ASN][1000 genomes]
rs9425308	0.95[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9425311	1.00[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs9425313	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9425316	0.93[ASN][1000 genomes]
rs9425329	0.94[CEU][hapmap]
rs9425334	0.94[CEU][hapmap]
rs9425598	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9425601	1.00[ASN][1000 genomes]
rs9425602	0.98[ASN][1000 genomes]
rs9425604	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9425606	1.00[CHB][hapmap];0.98[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172352400-172386400	Weak transcription	Psoas Muscle	Psoas
2	chr1:172368400-172390800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr1:172369600-172377000	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr1:172369600-172377600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr1:172370200-172385600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr1:172370600-172378200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr1:172370600-172378200	Weak transcription	Fetal Kidney	kidney
8	chr1:172372800-172381600	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr1:172373000-172378200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr1:172373000-172378200	Weak transcription	Brain Cingulate Gyrus	brain
11	chr1:172373000-172390800	Weak transcription	Brain Hippocampus Middle	brain
12	chr1:172373000-172390800	Weak transcription	Brain Substantia Nigra	brain
13	chr1:172373000-172411800	Weak transcription	Brain Angular Gyrus	brain
14	chr1:172375400-172377400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr1:172375400-172383600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr1:172375600-172377600	Weak transcription	NHDF-Ad	bronchial
17	chr1:172375600-172378000	Weak transcription	NHEK	skin
18	chr1:172375600-172378200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links