Variant report

Variant	rs3800310
Chromosome Location	chr6:27206843-27206844
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:27202945..27207226-chr6:27207417..27209319,3	MCF-7	breast:
2	chr6:27197426..27201736-chr6:27203200..27207154,7	K562	blood:
3	chr6:27128785..27131349-chr6:27205137..27206978,2	K562	blood:
4	chr6:27128785..27131507-chr6:27205478..27207504,2	K562	blood:
5	chr6:27203954..27208601-chr6:27209090..27212437,6	K562	blood:

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs1062834	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10946906	0.81[EUR][1000 genomes]
rs1102557	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11758615	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12153912	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12189835	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12189964	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12190473	1.00[JPT][hapmap]
rs12191280	1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs12192049	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12192320	0.81[EUR][1000 genomes]
rs12193820	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs12194893	1.00[JPT][hapmap]
rs12195360	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12196084	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12196889	0.83[AFR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12198077	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12199218	1.00[JPT][hapmap]
rs12200798	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12201774	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12203728	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12204768	1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12205628	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12205921	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs12207614	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12209393	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs12209429	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12209456	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs12209800	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12210905	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12213361	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12214930	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs12215241	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2023467	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3531	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs3800305	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3800306	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3922717	1.00[JPT][hapmap]
rs41269245	0.81[EUR][1000 genomes]
rs4636015	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs5030955	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5030958	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67153537	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6902012	0.84[EUR][1000 genomes]
rs6911234	0.81[EUR][1000 genomes]
rs6931711	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6940638	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs72843607	0.81[EUR][1000 genomes]
rs72843608	0.81[EUR][1000 genomes]
rs72843609	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72843611	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72843613	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72843615	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72843619	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72843622	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72843629	0.90[AFR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72843633	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72843640	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72843641	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72843643	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72843644	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7756481	0.81[EUR][1000 genomes]
rs858984	1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs858985	1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs858986	1.00[JPT][hapmap]
rs858988	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs858989	1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs858992	1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs858995	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9348756	1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9348757	0.81[EUR][1000 genomes]
rs9348758	0.81[EUR][1000 genomes]
rs9368492	0.83[EUR][1000 genomes]
rs9368493	0.80[EUR][1000 genomes]
rs9368498	0.84[EUR][1000 genomes]
rs9368499	0.84[EUR][1000 genomes]
rs9379965	0.83[EUR][1000 genomes]
rs9379970	0.84[EUR][1000 genomes]
rs9393796	0.83[EUR][1000 genomes]
rs9393803	0.84[EUR][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	nsv948921	chr6:26556890-27443957	Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	472 gene(s)	inside rSNPs	diseases
2	nsv1017328	chr6:27177147-27369588	Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27204800-27207000	Active TSS	A549	lung
2	chr6:27205200-27207000	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr6:27205200-27207000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
4	chr6:27205400-27207000	Active TSS	H9 Cell Line	embryonic stem cell
5	chr6:27205400-27207000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr6:27205400-27207000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr6:27205400-27207000	Active TSS	NHLF	lung
8	chr6:27205400-27207200	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
9	chr6:27205400-27207200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
10	chr6:27205400-27207200	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
11	chr6:27205600-27207000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr6:27205600-27207000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
13	chr6:27205600-27207000	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
14	chr6:27205600-27207000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:27205600-27207000	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
16	chr6:27205600-27207000	Flanking Active TSS	HMEC	breast
17	chr6:27205800-27207000	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
18	chr6:27205800-27207200	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
19	chr6:27206000-27207000	Bivalent/Poised TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr6:27206200-27207000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr6:27206200-27207000	Bivalent Enhancer	Placenta Amnion	Placenta Amnion
22	chr6:27206200-27207000	ZNF genes & repeats	Spleen	Spleen
23	chr6:27206400-27207000	Flanking Bivalent TSS/Enh	HUVEC	blood vessel
24	chr6:27206600-27207000	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr6:27206600-27207000	Bivalent Enhancer	Primary hematopoietic stem cells	blood
26	chr6:27206800-27207000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr6:27206800-27207000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr6:27206800-27207000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr6:27206800-27207000	Flanking Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr6:27206800-27207000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr6:27206800-27207000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr6:27206800-27207000	Bivalent Enhancer	Fetal Intestine Large	intestine
33	chr6:27206800-27207000	Bivalent Enhancer	Placenta	Placenta
34	chr6:27206800-27207000	Active TSS	GM12878-XiMat	blood
35	chr6:27206800-27207000	Active TSS	NHEK	skin
36	chr6:27206800-27207000	Active TSS	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links