Variant report

Variant	rs56095177
Chromosome Location	chr6:128662618-128662619
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 96 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs11964875	0.92[EUR][1000 genomes]
rs11965122	0.92[EUR][1000 genomes]
rs11965141	0.92[EUR][1000 genomes]
rs11966128	0.92[EUR][1000 genomes]
rs1339189	0.85[EUR][1000 genomes]
rs1339196	0.94[EUR][1000 genomes]
rs1416517	0.83[EUR][1000 genomes]
rs1538498	0.94[EUR][1000 genomes]
rs17055564	0.92[EUR][1000 genomes]
rs17055574	0.94[EUR][1000 genomes]
rs17055596	0.94[EUR][1000 genomes]
rs17055597	0.92[EUR][1000 genomes]
rs17055601	0.94[EUR][1000 genomes]
rs17055604	0.92[EUR][1000 genomes]
rs17055608	0.92[EUR][1000 genomes]
rs17055611	0.94[EUR][1000 genomes]
rs17055612	0.92[EUR][1000 genomes]
rs17055616	0.92[EUR][1000 genomes]
rs17055617	0.92[EUR][1000 genomes]
rs17055618	0.92[EUR][1000 genomes]
rs17055619	0.92[EUR][1000 genomes]
rs17055628	0.90[EUR][1000 genomes]
rs17055630	0.94[EUR][1000 genomes]
rs17055679	0.94[EUR][1000 genomes]
rs17055689	0.85[EUR][1000 genomes]
rs17055706	0.85[EUR][1000 genomes]
rs17055717	0.83[EUR][1000 genomes]
rs17055719	0.94[EUR][1000 genomes]
rs17055727	0.83[EUR][1000 genomes]
rs17055733	0.85[EUR][1000 genomes]
rs17343887	0.94[EUR][1000 genomes]
rs17353545	0.83[EUR][1000 genomes]
rs17430452	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs17456343	0.94[EUR][1000 genomes]
rs17456385	0.92[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs17456601	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2027311	0.92[EUR][1000 genomes]
rs4267969	0.94[EUR][1000 genomes]
rs4466261	0.92[EUR][1000 genomes]
rs55969073	0.94[EUR][1000 genomes]
rs56241890	0.94[EUR][1000 genomes]
rs57318936	0.94[EUR][1000 genomes]
rs59132771	0.94[EUR][1000 genomes]
rs6420738	0.85[EUR][1000 genomes]
rs6913718	0.92[EUR][1000 genomes]
rs6931769	0.92[EUR][1000 genomes]
rs72967026	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs72967039	0.92[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs72967046	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs72967053	0.92[EUR][1000 genomes]
rs72967056	0.92[EUR][1000 genomes]
rs72967058	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72967074	0.94[EUR][1000 genomes]
rs72967078	0.92[EUR][1000 genomes]
rs72967081	0.92[EUR][1000 genomes]
rs72967087	0.92[EUR][1000 genomes]
rs72967090	0.92[EUR][1000 genomes]
rs72969051	0.85[EUR][1000 genomes]
rs72969054	0.94[EUR][1000 genomes]
rs72969059	0.94[EUR][1000 genomes]
rs72969061	0.92[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs72969063	0.94[EUR][1000 genomes]
rs72969067	0.94[EUR][1000 genomes]
rs72969070	0.94[EUR][1000 genomes]
rs72969074	0.94[EUR][1000 genomes]
rs72969075	0.92[EUR][1000 genomes]
rs72969078	0.92[EUR][1000 genomes]
rs72969081	0.86[EUR][1000 genomes]
rs72969088	0.85[EUR][1000 genomes]
rs72969090	0.92[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs72969093	0.85[EUR][1000 genomes]
rs72969097	0.94[EUR][1000 genomes]
rs72969098	0.92[EUR][1000 genomes]
rs72971103	0.94[EUR][1000 genomes]
rs72971104	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs72972078	0.85[EUR][1000 genomes]
rs72972082	0.94[EUR][1000 genomes]
rs72972084	0.94[EUR][1000 genomes]
rs72972086	0.94[EUR][1000 genomes]
rs72972090	0.83[EUR][1000 genomes]
rs72972091	0.85[EUR][1000 genomes]
rs72974006	0.91[AFR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72974007	1.00[ASN][1000 genomes]
rs72974013	1.00[ASN][1000 genomes]
rs7771630	0.92[EUR][1000 genomes]
rs7773248	0.83[EUR][1000 genomes]
rs7776405	0.94[EUR][1000 genomes]
rs9321114	0.92[EUR][1000 genomes]
rs9372888	1.00[ASN][1000 genomes]
rs9375562	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9402035	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv886649	chr6:128399657-128808054	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1020071	chr6:128579774-129048919	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv538441	chr6:128579774-129048919	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128632200-128665200	Weak transcription	Gastric	stomach
2	chr6:128635600-128672000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr6:128649200-128665600	Weak transcription	Left Ventricle	heart
4	chr6:128649400-128671800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr6:128649400-128678600	Weak transcription	HSMM	muscle
6	chr6:128657800-128667800	Weak transcription	Fetal Kidney	kidney
7	chr6:128659800-128671400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr6:128660000-128666200	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr6:128660000-128667400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr6:128660000-128667800	Weak transcription	Ovary	ovary
11	chr6:128660600-128662800	Enhancers	Fetal Lung	lung
12	chr6:128661200-128664400	Weak transcription	Fetal Stomach	stomach
13	chr6:128661200-128665200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr6:128661200-128667800	Weak transcription	Brain Anterior Caudate	brain
15	chr6:128661400-128664800	Weak transcription	Rectal Smooth Muscle	rectum
16	chr6:128661400-128665000	Weak transcription	Colon Smooth Muscle	Colon
17	chr6:128661400-128671800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr6:128661400-128677200	Weak transcription	Brain Cingulate Gyrus	brain
19	chr6:128661600-128663000	Enhancers	Liver	Liver
20	chr6:128661600-128665000	Weak transcription	Fetal Intestine Small	intestine
21	chr6:128661600-128665200	Weak transcription	Brain Substantia Nigra	brain
22	chr6:128661600-128665200	Weak transcription	Small Intestine	intestine
23	chr6:128661600-128666600	Weak transcription	Brain Hippocampus Middle	brain
24	chr6:128661600-128667800	Weak transcription	Fetal Intestine Large	intestine
25	chr6:128661600-128679400	Weak transcription	Osteobl	bone
26	chr6:128661800-128664800	Weak transcription	Fetal Heart	heart
27	chr6:128661800-128665000	Weak transcription	Stomach Mucosa	stomach
28	chr6:128661800-128665200	Weak transcription	NHLF	lung
29	chr6:128661800-128671200	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr6:128662000-128665200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr6:128662200-128666400	Weak transcription	Stomach Smooth Muscle	stomach
32	chr6:128662400-128664800	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links