Variant report

Variant	rs7788664
Chromosome Location	chr7:38876138-38876139
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:38873915..38876598-chr7:38884159..38886331,2	MCF-7	breast:
2	chr7:38875566..38877442-chr7:38880848..38883339,2	MCF-7	breast:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10242978	0.82[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs10247503	0.81[JPT][hapmap]
rs10259755	0.85[AFR][1000 genomes]
rs10266891	0.80[ASN][1000 genomes]
rs10272767	0.81[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs12532461	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1473137	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1859937	0.83[CHB][hapmap];0.86[JPT][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2074656	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2074657	0.80[JPT][hapmap]
rs2190666	0.81[CHB][hapmap]
rs2240350	0.81[CEU][hapmap];0.81[CHB][hapmap]
rs2240351	0.81[JPT][hapmap]
rs2240352	0.85[JPT][hapmap]
rs2240355	0.81[CEU][hapmap];0.85[CHB][hapmap]
rs2240555	0.85[YRI][hapmap]
rs2286081	0.81[CEU][hapmap];0.85[CHB][hapmap];0.88[EUR][1000 genomes]
rs2286090	0.82[EUR][1000 genomes]
rs2286092	0.82[EUR][1000 genomes]
rs2286095	0.82[CEU][hapmap];0.84[CHB][hapmap];0.82[EUR][1000 genomes]
rs2286097	0.81[CEU][hapmap];0.85[CHB][hapmap];0.82[EUR][1000 genomes]
rs2286099	0.84[CEU][hapmap];0.85[CHB][hapmap];0.82[EUR][1000 genomes]
rs2286100	0.86[EUR][1000 genomes]
rs2392609	0.80[JPT][hapmap];0.81[YRI][hapmap]
rs2893567	0.81[CHB][hapmap];0.95[JPT][hapmap];0.88[YRI][hapmap];0.84[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs3779126	0.81[CEU][hapmap];0.85[CHB][hapmap];0.83[EUR][1000 genomes]
rs3801135	0.89[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3801139	0.85[JPT][hapmap]
rs3801140	0.85[JPT][hapmap]
rs3801142	0.81[EUR][1000 genomes]
rs3801143	0.80[JPT][hapmap]
rs3801144	0.82[EUR][1000 genomes]
rs3801145	0.80[JPT][hapmap]
rs4430003	0.90[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs4723793	0.89[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56098802	0.80[ASN][1000 genomes]
rs6462862	0.81[CEU][hapmap];0.85[CHB][hapmap];0.81[EUR][1000 genomes]
rs6961672	0.85[CHB][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs733150	0.81[JPT][hapmap]
rs7785161	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7785911	0.80[JPT][hapmap]
rs7795874	0.80[JPT][hapmap]
rs7803397	0.81[CHB][hapmap];0.89[JPT][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs886646	0.80[CHB][hapmap]
rs9638944	0.81[CHB][hapmap];0.84[JPT][hapmap];0.85[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032637	chr7:38832627-38902723	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv887966	chr7:38835035-38933942	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:38835600-38900800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr7:38858600-38901600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr7:38858800-38907600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr7:38859000-38895200	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr7:38859800-38900800	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr7:38860600-38900200	Weak transcription	Fetal Intestine Large	intestine
7	chr7:38863000-38876800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr7:38863000-38888200	Weak transcription	Fetal Intestine Small	intestine
9	chr7:38863800-38879600	Weak transcription	Fetal Lung	lung
10	chr7:38865800-38879600	Weak transcription	Right Atrium	heart
11	chr7:38866000-38886400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr7:38866400-38876800	Weak transcription	Primary hematopoietic stem cells	blood
13	chr7:38866400-38877000	Weak transcription	Primary T cells from cord blood	blood
14	chr7:38866800-38877000	Weak transcription	Primary B cells from cord blood	blood
15	chr7:38867200-38876800	Weak transcription	Primary B cells from peripheral blood	blood
16	chr7:38867400-38877800	Weak transcription	Fetal Brain Male	brain
17	chr7:38867400-38905200	Weak transcription	Left Ventricle	heart
18	chr7:38867600-38879600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr7:38869600-38888400	Weak transcription	Primary monocytes fromperipheralblood	blood
20	chr7:38870000-38876600	Weak transcription	GM12878-XiMat	blood
21	chr7:38870000-38888200	Weak transcription	Monocytes-CD14+_RO01746	blood
22	chr7:38870000-38895600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr7:38870200-38895600	Weak transcription	Primary T helper cells fromperipheralblood	blood
24	chr7:38871000-38884400	Weak transcription	Brain Cingulate Gyrus	brain
25	chr7:38871400-38880400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr7:38871400-38905800	Weak transcription	Aorta	Aorta
27	chr7:38871400-38920000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr7:38871600-38878400	Weak transcription	Brain Angular Gyrus	brain
29	chr7:38871600-38879800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr7:38871600-38906000	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr7:38873000-38907600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
32	chr7:38873200-38876800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr7:38873200-38884400	Weak transcription	Gastric	stomach
34	chr7:38873200-38889200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr7:38873200-38919200	Weak transcription	Pancreas	Pancrea
36	chr7:38874400-38878600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr7:38875800-38897400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr7:38876000-38877800	Weak transcription	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links