Variant report

Variant	rs6665797
Chromosome Location	chr1:214669271-214669272
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:214660865..214663396-chr1:214666846..214669507,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10746445	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10746446	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11120334	0.86[EUR][1000 genomes]
rs4130486	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4233305	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4233307	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4253891	0.85[EUR][1000 genomes]
rs4301608	0.81[EUR][1000 genomes]
rs4421564	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4451529	0.83[EUR][1000 genomes]
rs4465172	0.81[EUR][1000 genomes]
rs4539105	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6540831	0.81[EUR][1000 genomes]
rs6540836	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6540839	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6540840	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6682987	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7528679	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7528775	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7528800	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7535598	0.81[EUR][1000 genomes]
rs7537274	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7555415	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]

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	nsv468094	chr1:214654965-214687725	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv549180	chr1:214654965-214687725	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:214646000-214672200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr1:214648000-214669400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr1:214654400-214677400	Weak transcription	Gastric	stomach
4	chr1:214663200-214673600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr1:214664600-214669400	Weak transcription	Fetal Kidney	kidney
6	chr1:214664800-214671800	Enhancers	Skeletal Muscle Male	skeletal muscle
7	chr1:214664800-214672000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr1:214665000-214669600	Weak transcription	Spleen	Spleen
9	chr1:214665400-214676600	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr1:214665400-214705400	Weak transcription	Right Ventricle	heart
11	chr1:214665600-214670200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr1:214666600-214669400	Weak transcription	Rectal Smooth Muscle	rectum
13	chr1:214666600-214669600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr1:214666600-214671600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr1:214666600-214672400	Weak transcription	Ovary	ovary
16	chr1:214666600-214672400	Enhancers	Osteobl	bone
17	chr1:214666600-214673800	Weak transcription	Stomach Smooth Muscle	stomach
18	chr1:214666600-214675200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr1:214666600-214677600	Weak transcription	Pancreas	Pancrea
20	chr1:214666800-214669400	Weak transcription	Aorta	Aorta
21	chr1:214666800-214670600	Enhancers	NHEK	skin
22	chr1:214666800-214671200	Weak transcription	Adipose Nuclei	Adipose
23	chr1:214667400-214670800	Enhancers	HMEC	breast
24	chr1:214667600-214670000	Enhancers	HSMM	muscle
25	chr1:214667800-214670000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr1:214667800-214670000	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr1:214668000-214673200	Weak transcription	Placenta	Placenta
28	chr1:214668200-214671000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr1:214668400-214669600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr1:214668400-214669600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr1:214668400-214669600	Weak transcription	Psoas Muscle	Psoas
32	chr1:214668400-214670000	Enhancers	ES-I3 Cell Line	embryonic stem cell
33	chr1:214668400-214670000	Enhancers	A549	lung
34	chr1:214668400-214673200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr1:214668400-214673200	Weak transcription	NHLF	lung
36	chr1:214668400-214673600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
37	chr1:214668400-214673600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr1:214668400-214677600	Weak transcription	Left Ventricle	heart
39	chr1:214668400-214678600	Weak transcription	H1 Cell Line	embryonic stem cell
40	chr1:214668400-214680400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr1:214668600-214669600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr1:214668600-214669600	Weak transcription	HSMMtube	muscle
43	chr1:214668600-214670400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
44	chr1:214668600-214670600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr1:214668600-214671000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr1:214668600-214673600	Weak transcription	Placenta Amnion	Placenta Amnion
47	chr1:214668600-214677400	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr1:214668800-214669400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr1:214668800-214674200	Weak transcription	Fetal Heart	heart
50	chr1:214669000-214669400	Weak transcription	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links