Variant report

Variant	rs507760
Chromosome Location	chr3:140189400-140189401
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	chr3:140188983..140190979-chr3:140192938..140195327,2	MCF-7	breast:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs12054019	0.87[EUR][1000 genomes]
rs12488519	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12494276	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16850356	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs349503	0.84[EUR][1000 genomes]
rs349508	0.87[EUR][1000 genomes]
rs4683500	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs495109	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs536892	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs544827	0.84[EUR][1000 genomes]
rs566331	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58159053	0.84[EUR][1000 genomes]
rs72632310	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72632312	0.84[EUR][1000 genomes]
rs72632313	0.84[EUR][1000 genomes]
rs7433000	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757891	chr3:139925764-140524730	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	esv2759181	chr3:139925764-140524730	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv527831	chr3:139932966-140533823	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	esv34489	chr3:140009020-140469302	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv2757012	chr3:140009220-140460228	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv591863	chr3:140126067-140274442	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:140185600-140192000	Enhancers	NHDF-Ad	bronchial
2	chr3:140185800-140190400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr3:140185800-140192200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:140186000-140192400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr3:140186600-140191800	Weak transcription	HMEC	breast
6	chr3:140186600-140197800	Weak transcription	Adipose Nuclei	Adipose
7	chr3:140187000-140190000	Weak transcription	A549	lung
8	chr3:140187000-140191200	Weak transcription	NH-A	brain
9	chr3:140187200-140189600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr3:140187400-140189400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr3:140187400-140193600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr3:140187600-140189600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:140187600-140189600	Weak transcription	HSMM	muscle
14	chr3:140187600-140194800	Weak transcription	Brain Cingulate Gyrus	brain
15	chr3:140188000-140189600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr3:140188200-140189400	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr3:140188200-140189800	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr3:140188200-140190000	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
19	chr3:140188200-140190200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr3:140188400-140190400	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
21	chr3:140188600-140189800	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr3:140188600-140190200	Enhancers	H1 Cell Line	embryonic stem cell
23	chr3:140188600-140195800	Weak transcription	Ovary	ovary
24	chr3:140188800-140189800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr3:140188800-140191200	Weak transcription	HSMMtube	muscle
26	chr3:140189000-140189400	Enhancers	HUES64 Cell Line	embryonic stem cell
27	chr3:140189000-140189400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr3:140189000-140189400	Weak transcription	Osteobl	bone
29	chr3:140189200-140190400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr3:140189200-140191000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
31	chr3:140189200-140191000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr3:140189200-140191000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr3:140189400-140190800	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr3:140189400-140191400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr3:140189400-140192200	Enhancers	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links