Variant report

Variant	rs7728194
Chromosome Location	chr5:154119828-154119829
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:154110340..154114557-chr5:154119062..154122333,4	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs12188828	0.91[EUR][1000 genomes]
rs12300	0.81[EUR][1000 genomes]
rs1233078	0.86[ASN][1000 genomes]
rs17116411	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17116414	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17116421	0.91[EUR][1000 genomes]
rs17116442	0.86[EUR][1000 genomes]
rs17116534	0.82[EUR][1000 genomes]
rs2396999	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2544874	0.82[EUR][1000 genomes]
rs2544875	0.82[EUR][1000 genomes]
rs2544876	0.82[EUR][1000 genomes]
rs2544880	0.82[EUR][1000 genomes]
rs2560063	0.81[EUR][1000 genomes]
rs2688186	0.82[EUR][1000 genomes]
rs2688187	0.82[EUR][1000 genomes]
rs2688188	0.82[EUR][1000 genomes]
rs2688189	0.82[EUR][1000 genomes]
rs2688190	0.82[EUR][1000 genomes]
rs2688191	0.82[EUR][1000 genomes]
rs2688193	0.81[EUR][1000 genomes]
rs2688198	0.82[EUR][1000 genomes]
rs2688200	0.82[EUR][1000 genomes]
rs2688201	0.82[EUR][1000 genomes]
rs2688206	0.82[EUR][1000 genomes]
rs2688208	0.81[EUR][1000 genomes]
rs39614	0.86[EUR][1000 genomes]
rs4623203	0.89[ASN][1000 genomes]
rs56374414	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs58415346	0.91[EUR][1000 genomes]
rs59525998	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs59749917	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6876004	0.89[ASN][1000 genomes]
rs6884416	0.84[EUR][1000 genomes]
rs702742	0.84[EUR][1000 genomes]
rs73276742	0.91[EUR][1000 genomes]
rs7723269	0.91[EUR][1000 genomes]
rs816717	0.89[EUR][1000 genomes]
rs816718	0.88[EUR][1000 genomes]
rs816720	0.81[EUR][1000 genomes]
rs816722	0.82[EUR][1000 genomes]
rs9942412	0.85[EUR][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	nsv1021153	chr5:154099869-154147970	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:154074200-154120000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr5:154104000-154120000	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr5:154107200-154133200	Weak transcription	Duodenum Mucosa	Duodenum
4	chr5:154109200-154120000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr5:154109600-154120000	Weak transcription	Liver	Liver
6	chr5:154109600-154120800	Weak transcription	Stomach Mucosa	stomach
7	chr5:154111200-154120400	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr5:154111400-154120200	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr5:154112000-154120800	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr5:154112200-154123600	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr5:154112600-154120200	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr5:154113000-154120400	Weak transcription	Psoas Muscle	Psoas
13	chr5:154115800-154120400	Weak transcription	Left Ventricle	heart
14	chr5:154116200-154132400	Weak transcription	Fetal Intestine Small	intestine
15	chr5:154117000-154120000	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr5:154117800-154120600	Weak transcription	Gastric	stomach
17	chr5:154117800-154120800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr5:154117800-154123600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr5:154117800-154123600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr5:154117800-154128600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr5:154117800-154133000	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr5:154118000-154120400	Weak transcription	Pancreas	Pancrea
23	chr5:154118000-154121000	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr5:154118000-154123600	Weak transcription	HepG2	liver
25	chr5:154118000-154133000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr5:154118200-154120200	Weak transcription	Fetal Stomach	stomach
27	chr5:154118400-154120200	Weak transcription	Brain Germinal Matrix	brain
28	chr5:154118600-154120200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr5:154119000-154121600	Enhancers	Cortex derived primary cultured neurospheres	brain
30	chr5:154119200-154121400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr5:154119200-154121400	Enhancers	Adipose Nuclei	Adipose
32	chr5:154119400-154120400	Enhancers	Stomach Smooth Muscle	stomach
33	chr5:154119400-154121000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr5:154119400-154121600	Enhancers	Brain Cingulate Gyrus	brain
35	chr5:154119600-154120200	Weak transcription	Right Atrium	heart
36	chr5:154119600-154120800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr5:154119600-154133400	Weak transcription	Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links