Variant report

Variant	rs60534728
Chromosome Location	chr1:209548171-209548172
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:209538296..209539816-chr1:209546804..209548572,2	MCF-7	breast:
2	chr1:209547762..209552825-chr1:209601391..209605097,6	MCF-7	breast:
3	chr1:209547752..209549329-chr1:209603815..209605769,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000230937	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1006316	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1006317	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10494921	0.80[EUR][1000 genomes]
rs1354850	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1354852	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1354853	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1395753	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1507331	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1507336	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17014320	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17014323	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17014337	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17014370	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17014375	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17014395	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17014396	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4844473	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4844807	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4844809	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4844815	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4844820	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4844821	0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs55684110	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58017268	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60460414	0.94[ASN][1000 genomes]
rs6674793	0.95[ASN][1000 genomes]
rs6681466	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs74155473	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7516757	0.81[ASN][1000 genomes]
rs7516864	0.81[ASN][1000 genomes]
rs7548184	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832492	chr1:209383771-209589312	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:209535800-209550800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr1:209536800-209548600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:209537600-209548600	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr1:209540400-209549200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr1:209541200-209548600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr1:209542400-209548800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr1:209542600-209549200	Weak transcription	A549	lung
8	chr1:209543200-209548400	Weak transcription	NHLF	lung
9	chr1:209543200-209548600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr1:209543200-209548800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr1:209543400-209548400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr1:209543400-209548400	Weak transcription	Hela-S3	cervix
13	chr1:209543400-209548400	Weak transcription	Osteobl	bone
14	chr1:209543600-209548600	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr1:209544000-209549000	Weak transcription	Fetal Lung	lung
16	chr1:209544400-209550200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr1:209544600-209548600	Weak transcription	Fetal Brain Female	brain
18	chr1:209545600-209548800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr1:209545600-209548800	Weak transcription	Fetal Brain Male	brain
20	chr1:209546600-209552800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr1:209546800-209550600	Enhancers	NHEK	skin
22	chr1:209547200-209549400	Enhancers	H1 Cell Line	embryonic stem cell
23	chr1:209547400-209548400	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr1:209547400-209548400	Weak transcription	HMEC	breast
25	chr1:209547400-209548600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr1:209547400-209556000	Weak transcription	Esophagus	oesophagus
27	chr1:209548000-209548800	Enhancers	ES-I3 Cell Line	embryonic stem cell
28	chr1:209548000-209550200	Enhancers	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links