Variant report

Variant	rs2059722
Chromosome Location	chr2:171832347-171832348
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:171828921..171832417-chr2:172287512..172291387,9	MCF-7	breast:
2	chr2:171830988..171833432-chr2:172289480..172291537,2	K562	blood:
3	chr2:171830458..171832703-chr2:171892970..171895411,2	K562	blood:
4	chr2:171831373..171832895-chr2:171839356..171842294,2	K562	blood:
5	chr2:171830081..171832859-chr2:172285221..172286782,2	MCF-7	breast:
6	chr2:171829044..171833904-chr2:172289780..172292386,7	MCF-7	breast:
7	chr2:171830241..171832520-chr2:172396337..172399397,3	MCF-7	breast:
8	chr2:171828467..171833455-chr2:172014696..172018339,11	K562	blood:
9	chr2:171830106..171833063-chr2:171996453..171998706,2	K562	blood:
10	chr2:171828787..171834064-chr2:172014893..172018034,9	MCF-7	breast:
11	chr2:171827918..171832960-chr2:172014444..172018904,9	MCF-7	breast:
12	chr2:171785126..171787756-chr2:171828278..171833323,7	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000115806	Chromatin interaction
ENSG00000198586	Chromatin interaction
ENSG00000115827	Chromatin interaction
ENSG00000123600	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

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[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13408916	1.00[EUR][1000 genomes]
rs13415374	1.00[EUR][1000 genomes]
rs13417630	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13418838	1.00[EUR][1000 genomes]
rs13422667	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13426912	1.00[EUR][1000 genomes]
rs13428121	1.00[EUR][1000 genomes]
rs1863773	1.00[EUR][1000 genomes]
rs2033161	1.00[EUR][1000 genomes]
rs2052809	1.00[EUR][1000 genomes]
rs2217151	1.00[EUR][1000 genomes]
rs2217184	1.00[EUR][1000 genomes]
rs2247657	1.00[EUR][1000 genomes]
rs2356372	1.00[EUR][1000 genomes]
rs2555919	1.00[EUR][1000 genomes]
rs2555920	1.00[EUR][1000 genomes]
rs2555921	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2555923	1.00[EUR][1000 genomes]
rs2555924	1.00[EUR][1000 genomes]
rs2555925	1.00[EUR][1000 genomes]
rs2555927	1.00[EUR][1000 genomes]
rs2557800	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2557801	1.00[EUR][1000 genomes]
rs2557805	1.00[EUR][1000 genomes]
rs2676129	1.00[EUR][1000 genomes]
rs2676134	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2676135	0.80[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2676146	1.00[EUR][1000 genomes]
rs2676148	1.00[EUR][1000 genomes]
rs2723237	1.00[EUR][1000 genomes]
rs2723244	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2723246	1.00[EUR][1000 genomes]
rs2723247	1.00[EUR][1000 genomes]
rs28499279	1.00[EUR][1000 genomes]
rs28641775	1.00[EUR][1000 genomes]
rs4027753	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4668365	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4668366	1.00[EUR][1000 genomes]
rs4668367	1.00[EUR][1000 genomes]
rs6433274	1.00[EUR][1000 genomes]
rs6433279	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[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6735986	1.00[EUR][1000 genomes]
rs6749884	1.00[EUR][1000 genomes]
rs6751462	1.00[EUR][1000 genomes]
rs6761606	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73027301	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7560590	1.00[EUR][1000 genomes]
rs7582081	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7584937	1.00[EUR][1000 genomes]
rs964171	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:171830400-171842200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:171830600-171832600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr2:171830600-171832600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr2:171830600-171902800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr2:171830800-171832400	Enhancers	Placenta	Placenta
6	chr2:171830800-171832600	Enhancers	Fetal Intestine Large	intestine
7	chr2:171830800-171832600	Enhancers	Fetal Intestine Small	intestine
8	chr2:171830800-171839800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr2:171830800-171891400	Weak transcription	Spleen	Spleen
10	chr2:171831000-171832400	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr2:171831000-171832600	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr2:171831000-171833800	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr2:171831000-171838600	Weak transcription	Colon Smooth Muscle	Colon
14	chr2:171831000-171840000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr2:171831000-171847600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr2:171831000-171850000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr2:171831200-171832600	Enhancers	Duodenum Mucosa	Duodenum
18	chr2:171831200-171838200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr2:171831200-171840400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr2:171831200-171843200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr2:171831200-171845400	Weak transcription	HMEC	breast
22	chr2:171831200-171845800	Weak transcription	Osteobl	bone
23	chr2:171831200-171847000	Weak transcription	A549	lung
24	chr2:171831200-171857400	Weak transcription	HSMMtube	muscle
25	chr2:171831400-171832600	Flanking Active TSS	HepG2	liver
26	chr2:171831400-171849400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr2:171831400-171857000	Weak transcription	NHEK	skin
28	chr2:171831400-171879200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr2:171831400-171916200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr2:171831600-171834000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr2:171831600-171835800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr2:171831600-171840000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr2:171832000-171844800	Weak transcription	GM12878-XiMat	blood
34	chr2:171832200-171832400	Enhancers	HUES48 Cell Line	embryonic stem cell
35	chr2:171832200-171832600	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr2:171832200-171838200	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links