Variant report

Variant	rs2457573
Chromosome Location	chr6:160869091-160869092
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs1009324	0.89[CEU][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1510228	0.85[CEU][hapmap];0.91[GIH][hapmap];1.00[ASN][1000 genomes]
rs2102503	1.00[ASN][1000 genomes]
rs2136043	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2246531	0.85[CEU][hapmap];1.00[GIH][hapmap]
rs2450970	1.00[ASN][1000 genomes]
rs2450971	1.00[ASN][1000 genomes]
rs2450977	1.00[ASN][1000 genomes]
rs2457010	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2457011	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2457012	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2457013	1.00[ASN][1000 genomes]
rs2457014	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs2457548	0.94[CEU][hapmap];0.90[EUR][1000 genomes]
rs2457552	0.85[CEU][hapmap];0.82[GIH][hapmap]
rs2457555	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs2457556	1.00[ASN][1000 genomes]
rs2457557	1.00[ASN][1000 genomes]
rs2457558	1.00[ASN][1000 genomes]
rs2457562	1.00[ASN][1000 genomes]
rs2457565	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2457568	1.00[ASN][1000 genomes]
rs2457570	0.85[CEU][hapmap];0.91[GIH][hapmap];1.00[ASN][1000 genomes]
rs2457572	0.85[CEU][hapmap];0.91[GIH][hapmap];1.00[ASN][1000 genomes]
rs2457577	0.94[CEU][hapmap];1.00[GIH][hapmap];0.91[MEX][hapmap];0.90[TSI][hapmap];0.94[EUR][1000 genomes]
rs2481058	1.00[ASN][1000 genomes]
rs2484240	1.00[ASN][1000 genomes]
rs2484241	1.00[ASN][1000 genomes]
rs2484242	1.00[ASN][1000 genomes]
rs2504916	0.81[CEU][hapmap];1.00[ASN][1000 genomes]
rs2504917	1.00[ASN][1000 genomes]
rs2504918	1.00[ASN][1000 genomes]
rs2504919	1.00[ASN][1000 genomes]
rs2504923	0.82[ASW][hapmap];1.00[CEU][hapmap];0.91[GIH][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2504925	1.00[CEU][hapmap];1.00[GIH][hapmap];0.91[MEX][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2504928	0.94[CEU][hapmap];1.00[GIH][hapmap];0.91[MEX][hapmap];0.90[TSI][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2504929	0.85[CEU][hapmap];1.00[GIH][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2504930	0.85[CEU][hapmap];1.00[GIH][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2504931	0.85[CEU][hapmap];0.91[GIH][hapmap];1.00[ASN][1000 genomes]
rs2504934	1.00[ASN][1000 genomes]
rs2504938	0.87[CEU][hapmap];1.00[ASN][1000 genomes]
rs2504939	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs2504956	1.00[ASN][1000 genomes]
rs2504957	1.00[ASN][1000 genomes]
rs2504958	1.00[ASN][1000 genomes]
rs2504959	1.00[ASN][1000 genomes]
rs2619272	1.00[ASN][1000 genomes]
rs2634656	1.00[ASN][1000 genomes]
rs2941382	0.89[CEU][hapmap];0.91[GIH][hapmap];0.91[MEX][hapmap];0.90[TSI][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2941383	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3004077	1.00[ASN][1000 genomes]
rs3123630	0.89[CEU][hapmap];0.91[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3123632	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs316037	1.00[ASN][1000 genomes]
rs4708869	0.89[CEU][hapmap];0.91[GIH][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6906930	0.92[LWK][hapmap];0.87[MKK][hapmap];0.91[YRI][hapmap];0.81[AFR][1000 genomes]
rs6925865	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73012278	0.85[EUR][1000 genomes]
rs73012297	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs73014164	0.80[EUR][1000 genomes]
rs9456541	0.81[AFR][1000 genomes]
rs9457933	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9457937	0.82[EUR][1000 genomes]
rs986666	0.85[CEU][hapmap];0.91[GIH][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758089	chr6:160372244-161234665	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	esv2759484	chr6:160372244-161234665	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	esv35098	chr6:160422589-161070870	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	esv2757197	chr6:160432331-161070870	Weak transcription Genic enhancers Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
5	nsv818463	chr6:160435569-161025547	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
6	nsv1030171	chr6:160648469-161091864	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv886809	chr6:160670494-160979275	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
8	nsv886810	chr6:160700769-160897872	Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
9	nsv886811	chr6:160700769-161070990	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
10	nsv886812	chr6:160706661-161024848	Enhancers Bivalent/Poised TSS Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
11	nsv1020357	chr6:160849895-160883394	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:160818600-160876800	Weak transcription	Esophagus	oesophagus
2	chr6:160852600-160876800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr6:160853600-160875200	Weak transcription	Ovary	ovary
4	chr6:160859200-160876000	Weak transcription	Rectal Smooth Muscle	rectum
5	chr6:160861000-160875200	Weak transcription	Fetal Muscle Leg	muscle
6	chr6:160861800-160872200	Weak transcription	Fetal Muscle Trunk	muscle
7	chr6:160863600-160882800	Weak transcription	Gastric	stomach
8	chr6:160864000-160876000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr6:160864400-160872400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:160864400-160876600	Weak transcription	Brain Substantia Nigra	brain
11	chr6:160866400-160870400	Weak transcription	HepG2	liver
12	chr6:160866400-160876000	Weak transcription	Adipose Nuclei	Adipose
13	chr6:160866600-160871800	Weak transcription	Liver	Liver
14	chr6:160866600-160875200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr6:160866600-160876200	Weak transcription	Stomach Smooth Muscle	stomach
16	chr6:160866600-160876600	Weak transcription	Duodenum Mucosa	Duodenum
17	chr6:160866600-160883800	Weak transcription	Spleen	Spleen
18	chr6:160867000-160877800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr6:160867200-160876800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr6:160867400-160876800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr6:160868600-160870200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr6:160868800-160871000	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr6:160868800-160874000	Weak transcription	A549	lung
24	chr6:160868800-160875000	Weak transcription	Aorta	Aorta
25	chr6:160868800-160876600	Weak transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links