Variant report

Variant	rs6659116
Chromosome Location	chr1:172447583-172447584
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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:172444678..172448407-chr1:172449595..172452783,4	MCF-7	breast:
2	chr1:172430415..172432096-chr1:172445397..172448022,2	MCF-7	breast:
3	chr1:172442117..172444152-chr1:172447245..172449151,2	MCF-7	breast:
4	chr1:172445706..172447652-chr1:172448722..172450346,2	MCF-7	breast:
5	chr1:172443498..172448130-chr1:172464565..172470217,6	MCF-7	breast:
6	chr1:172446186..172449465-chr1:172453290..172456468,4	MCF-7	breast:
7	chr1:172417013..172420317-chr1:172444254..172448233,5	MCF-7	breast:
8	chr1:172443879..172448097-chr1:172501090..172503799,4	MCF-7	breast:
9	chr1:172446479..172448732-chr1:172458386..172460620,2	MCF-7	breast:
10	chr1:172446019..172448737-chr1:172490304..172491873,2	MCF-7	breast:
11	chr1:172443532..172455037-chr1:172498094..172506505,15	MCF-7	breast:
12	chr1:172418092..172419733-chr1:172445872..172448682,2	MCF-7	breast:
13	chr1:172444481..172448040-chr1:172465983..172470352,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000094975	Chromatin interaction
ENSG00000180999	Chromatin interaction

rs_ID	r²[population]
rs1129942	0.89[EUR][1000 genomes]
rs2001130	0.95[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2001131	0.85[EUR][1000 genomes]
rs2001132	0.89[EUR][1000 genomes]
rs2032531	0.85[EUR][1000 genomes]
rs2051628	0.85[EUR][1000 genomes]
rs2157451	0.81[EUR][1000 genomes]
rs2213738	0.95[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2213739	0.85[EUR][1000 genomes]
rs2230471	0.81[EUR][1000 genomes]
rs2901655	0.89[EUR][1000 genomes]
rs3948765	0.89[EUR][1000 genomes]
rs4244193	0.89[EUR][1000 genomes]
rs4244194	0.89[EUR][1000 genomes]
rs4916259	0.85[EUR][1000 genomes]
rs4916260	0.89[EUR][1000 genomes]
rs4916261	0.89[EUR][1000 genomes]
rs6656400	0.83[AFR][1000 genomes]
rs6660798	0.83[EUR][1000 genomes]
rs6667786	0.85[EUR][1000 genomes]
rs6683444	0.85[EUR][1000 genomes]
rs6689291	0.89[EUR][1000 genomes]
rs6700880	0.85[EUR][1000 genomes]
rs7518300	0.89[EUR][1000 genomes]
rs7522692	0.89[EUR][1000 genomes]
rs7538417	0.89[EUR][1000 genomes]
rs916365	0.85[EUR][1000 genomes]
rs9425328	0.89[EUR][1000 genomes]
rs9425330	0.95[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9425333	0.83[AFR][1000 genomes]
rs9425618	0.80[EUR][1000 genomes]
rs9425620	0.89[EUR][1000 genomes]
rs9425623	0.83[AFR][1000 genomes]
rs9425625	0.83[AFR][1000 genomes]

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172438200-172449200	Weak transcription	Fetal Muscle Leg	muscle
2	chr1:172443000-172448400	Weak transcription	K562	blood
3	chr1:172444200-172448000	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr1:172444200-172448400	Enhancers	HMEC	breast
5	chr1:172444200-172456200	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr1:172444400-172448200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr1:172444400-172448200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr1:172445000-172449400	Weak transcription	Primary T cells from cord blood	blood
9	chr1:172445000-172452400	Weak transcription	Primary neutrophils fromperipheralblood	blood
10	chr1:172445200-172447600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr1:172445600-172448600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr1:172445600-172449800	Weak transcription	HepG2	liver
13	chr1:172445800-172448600	Enhancers	NHEK	skin
14	chr1:172445800-172449200	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr1:172445800-172450800	Weak transcription	Fetal Intestine Large	intestine
16	chr1:172445800-172451000	Weak transcription	Fetal Intestine Small	intestine
17	chr1:172445800-172451600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr1:172446600-172448000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr1:172446800-172447800	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr1:172446800-172449200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr1:172446800-172449200	Weak transcription	Pancreas	Pancrea
22	chr1:172446800-172451000	Weak transcription	A549	lung
23	chr1:172447400-172447800	Weak transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links