Variant report

Variant	rs2555923
Chromosome Location	chr2:171890785-171890786
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:171889760..171896240-chr2:171897516..171901220,6	K562	blood:
2	chr2:171889636..171891864-chr2:172289797..172291819,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115827	Chromatin interaction
ENSG00000123600	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10168109	1.00[EUR][1000 genomes]
rs10173304	1.00[EUR][1000 genomes]
rs10174275	1.00[EUR][1000 genomes]
rs10204442	1.00[EUR][1000 genomes]
rs10754976	1.00[EUR][1000 genomes]
rs10803856	1.00[EUR][1000 genomes]
rs10930452	1.00[EUR][1000 genomes]
rs12621215	1.00[EUR][1000 genomes]
rs13382924	1.00[EUR][1000 genomes]
rs13385649	1.00[EUR][1000 genomes]
rs13395368	1.00[EUR][1000 genomes]
rs13408916	1.00[EUR][1000 genomes]
rs13415374	1.00[EUR][1000 genomes]
rs13417630	1.00[EUR][1000 genomes]
rs13418838	1.00[EUR][1000 genomes]
rs13422667	1.00[EUR][1000 genomes]
rs13426912	1.00[EUR][1000 genomes]
rs13428121	1.00[EUR][1000 genomes]
rs1863773	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2033161	1.00[EUR][1000 genomes]
rs2052809	1.00[EUR][1000 genomes]
rs2059722	1.00[EUR][1000 genomes]
rs2081769	0.84[AFR][1000 genomes]
rs2217151	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2217184	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2247657	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2356372	1.00[EUR][1000 genomes]
rs2555919	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2555920	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2555921	1.00[EUR][1000 genomes]
rs2555924	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2555925	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2555927	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2557795	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs2557800	1.00[EUR][1000 genomes]
rs2557801	1.00[EUR][1000 genomes]
rs2557805	1.00[EUR][1000 genomes]
rs2676129	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2676134	1.00[EUR][1000 genomes]
rs2676135	1.00[EUR][1000 genomes]
rs2676146	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2676148	1.00[EUR][1000 genomes]
rs2723237	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2723244	1.00[EUR][1000 genomes]
rs2723246	1.00[EUR][1000 genomes]
rs2723247	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28499279	1.00[EUR][1000 genomes]
rs28641775	1.00[EUR][1000 genomes]
rs4027753	1.00[EUR][1000 genomes]
rs4668366	1.00[EUR][1000 genomes]
rs4668367	1.00[EUR][1000 genomes]
rs6433274	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6433279	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6433280	1.00[EUR][1000 genomes]
rs6721080	1.00[EUR][1000 genomes]
rs6722314	1.00[EUR][1000 genomes]
rs6732108	1.00[EUR][1000 genomes]
rs6735986	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6749884	1.00[EUR][1000 genomes]
rs6751462	1.00[EUR][1000 genomes]
rs6761606	1.00[EUR][1000 genomes]
rs73027301	1.00[EUR][1000 genomes]
rs7560590	1.00[EUR][1000 genomes]
rs7582081	1.00[EUR][1000 genomes]
rs7584937	1.00[EUR][1000 genomes]
rs964171	1.00[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	nsv431801	chr2:171721493-171966493	ZNF genes & repeats Strong transcription Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv834456	chr2:171874210-172014659	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:171830600-171902800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr2:171830800-171891400	Weak transcription	Spleen	Spleen
3	chr2:171831400-171916200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr2:171841000-171895800	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr2:171841600-171940000	Weak transcription	Right Ventricle	heart
6	chr2:171842200-171892000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr2:171842600-171912000	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr2:171846000-171898000	Weak transcription	Psoas Muscle	Psoas
9	chr2:171846200-171901000	Weak transcription	Fetal Brain Male	brain
10	chr2:171847400-171902600	Weak transcription	Brain Angular Gyrus	brain
11	chr2:171850400-171892000	Weak transcription	Brain Anterior Caudate	brain
12	chr2:171853200-171898800	Weak transcription	Aorta	Aorta
13	chr2:171858000-171891800	Weak transcription	Fetal Brain Female	brain
14	chr2:171858000-171892000	Weak transcription	Brain Substantia Nigra	brain
15	chr2:171859400-171892000	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr2:171859600-171897000	Weak transcription	Esophagus	oesophagus
17	chr2:171862600-171918400	Weak transcription	Brain Germinal Matrix	brain
18	chr2:171862800-171899000	Weak transcription	Brain Cingulate Gyrus	brain
19	chr2:171862800-171931200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr2:171863200-171896200	Weak transcription	Hela-S3	cervix
21	chr2:171865800-171905000	Weak transcription	Fetal Heart	heart
22	chr2:171867800-171898600	Weak transcription	Rectal Smooth Muscle	rectum
23	chr2:171867800-171898800	Weak transcription	Colonic Mucosa	Colon
24	chr2:171867800-171916200	Weak transcription	Gastric	stomach
25	chr2:171868000-171890800	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr2:171868200-171891800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr2:171871200-171897800	Weak transcription	Pancreas	Pancrea
28	chr2:171871400-171891200	Weak transcription	Colon Smooth Muscle	Colon
29	chr2:171871400-171898000	Weak transcription	Lung	lung
30	chr2:171871600-171892000	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr2:171873000-171891600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr2:171874800-171916200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr2:171875000-171892200	Strong transcription	Monocytes-CD14+_RO01746	blood
34	chr2:171877800-171892200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr2:171878000-171891800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr2:171878000-171943200	Weak transcription	Small Intestine	intestine
37	chr2:171878200-171892200	Weak transcription	HUVEC	blood vessel
38	chr2:171878600-171891800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr2:171878800-171893600	Strong transcription	Primary monocytes fromperipheralblood	blood
40	chr2:171878800-171940000	Weak transcription	Stomach Mucosa	stomach
41	chr2:171879000-171892400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr2:171879200-171891000	Weak transcription	A549	lung
43	chr2:171879800-171891600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr2:171879800-171891800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr2:171879800-171891800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr2:171879800-171892000	Weak transcription	Left Ventricle	heart
47	chr2:171879800-171892000	Weak transcription	Stomach Smooth Muscle	stomach
48	chr2:171879800-171892000	Weak transcription	Thymus	Thymus
49	chr2:171879800-171892200	Weak transcription	NHLF	lung
50	chr2:171879800-171894200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links