Variant report

Variant	rs2245574
Chromosome Location	chr21:17177804-17177805
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr21:17102120..17103992-chr21:17176762..17179097,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000155313	Chromatin interaction

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs1022457	0.83[EUR][1000 genomes]
rs10482876	0.91[CEU][hapmap]
rs11909953	0.84[YRI][hapmap];0.84[AFR][1000 genomes]
rs11910884	0.81[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1543299	0.82[CEU][hapmap];0.85[JPT][hapmap]
rs17241416	0.91[CEU][hapmap]
rs17241423	0.89[CEU][hapmap]
rs17241430	0.91[CEU][hapmap]
rs17241444	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs17241460	0.94[EUR][1000 genomes]
rs17241481	0.94[EUR][1000 genomes]
rs17275511	0.92[EUR][1000 genomes]
rs17307176	0.91[CEU][hapmap];0.85[JPT][hapmap];0.92[EUR][1000 genomes]
rs17307190	0.94[EUR][1000 genomes]
rs17307197	0.94[EUR][1000 genomes]
rs17307204	0.94[EUR][1000 genomes]
rs2026853	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2205585	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2205588	0.94[EUR][1000 genomes]
rs2205589	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2223176	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2242676	0.91[CEU][hapmap];0.85[JPT][hapmap]
rs2242680	0.94[EUR][1000 genomes]
rs2242681	0.94[EUR][1000 genomes]
rs2404000	0.94[EUR][1000 genomes]
rs2823455	0.82[CEU][hapmap]
rs2823469	0.83[ASN][1000 genomes]
rs2823470	0.81[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs2823471	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs2823472	0.82[CEU][hapmap];0.91[YRI][hapmap];0.81[AFR][1000 genomes]
rs2823476	0.84[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2823477	0.81[YRI][hapmap]
rs2823478	0.91[CEU][hapmap];0.85[JPT][hapmap]
rs2823482	0.88[CHB][hapmap];0.93[YRI][hapmap];0.85[AFR][1000 genomes]
rs2823489	0.82[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.91[YRI][hapmap];0.85[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs2823491	0.91[CEU][hapmap];0.85[EUR][1000 genomes]
rs2823493	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2823495	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2823496	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2823497	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2823498	0.95[EUR][1000 genomes]
rs2823499	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2823500	0.91[CEU][hapmap];0.94[CHB][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2823502	0.86[AFR][1000 genomes]
rs2823503	0.86[AFR][1000 genomes]
rs2823504	0.82[CEU][hapmap]
rs2823505	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2823510	0.83[EUR][1000 genomes]
rs2823511	0.83[EUR][1000 genomes]
rs2823513	0.80[EUR][1000 genomes]
rs28725201	0.83[ASN][1000 genomes]
rs3787577	0.91[CEU][hapmap];0.92[EUR][1000 genomes]
rs56666611	0.81[EUR][1000 genomes]
rs59084861	0.94[EUR][1000 genomes]
rs6517609	0.82[CEU][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap];0.87[YRI][hapmap];0.83[ASN][1000 genomes]
rs6517611	0.81[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs6517613	0.82[CEU][hapmap];0.81[CHB][hapmap];0.87[YRI][hapmap];0.81[ASN][1000 genomes]
rs6517648	0.91[CEU][hapmap];0.83[CHB][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes]
rs6517652	1.00[CEU][hapmap];0.83[CHB][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes]
rs6517675	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs722887	0.80[AFR][1000 genomes]
rs7278727	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7279170	0.80[AFR][1000 genomes]
rs7281511	0.91[CEU][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7283707	0.91[CEU][hapmap];0.81[CHB][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes]
rs73346766	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73346769	0.91[EUR][1000 genomes]
rs73357260	0.81[EUR][1000 genomes]
rs8127158	0.82[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.87[YRI][hapmap]
rs8128073	0.92[EUR][1000 genomes]
rs8128766	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8132755	0.84[AFR][1000 genomes]
rs8133079	0.94[EUR][1000 genomes]
rs8134327	0.82[CEU][hapmap];0.81[CHB][hapmap];0.93[YRI][hapmap]
rs9941829	0.80[AFR][1000 genomes]
rs9974210	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9976815	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9977000	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9977069	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9981766	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9982479	0.81[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs9983248	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9983385	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9983458	0.80[ASN][1000 genomes]
rs9983542	0.85[JPT][hapmap]
rs9983858	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][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	nsv834050	chr21:17146090-17348951	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
2	nsv1063035	chr21:17154222-17224344	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:17151800-17191000	Weak transcription	NH-A	brain
2	chr21:17155000-17179800	Weak transcription	Spleen	Spleen
3	chr21:17155000-17187400	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr21:17155000-17188600	Weak transcription	HepG2	liver
5	chr21:17155200-17179200	Weak transcription	Fetal Intestine Large	intestine
6	chr21:17155200-17179200	Weak transcription	Left Ventricle	heart
7	chr21:17155200-17181200	Weak transcription	Duodenum Mucosa	Duodenum
8	chr21:17155200-17181400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr21:17155200-17181400	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr21:17155200-17182200	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr21:17155200-17183200	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr21:17155200-17183200	Weak transcription	Placenta	Placenta
13	chr21:17155200-17184600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr21:17155200-17186200	Weak transcription	Fetal Thymus	thymus
15	chr21:17155200-17187200	Weak transcription	Thymus	Thymus
16	chr21:17155200-17187400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr21:17155200-17187800	Weak transcription	Fetal Kidney	kidney
18	chr21:17155200-17189800	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr21:17155200-17197600	Weak transcription	Fetal Heart	heart
20	chr21:17155200-17199200	Weak transcription	Right Ventricle	heart
21	chr21:17155200-17203800	Weak transcription	Colon Smooth Muscle	Colon
22	chr21:17155200-17209800	Weak transcription	Rectal Smooth Muscle	rectum
23	chr21:17155200-17252800	Weak transcription	Fetal Brain Male	brain
24	chr21:17155600-17179200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr21:17155600-17182000	Weak transcription	Fetal Lung	lung
26	chr21:17155800-17185400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr21:17155800-17186200	Weak transcription	Fetal Muscle Leg	muscle
28	chr21:17155800-17187200	Weak transcription	Fetal Muscle Trunk	muscle
29	chr21:17157000-17178400	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr21:17161400-17187200	Weak transcription	Aorta	Aorta
31	chr21:17161600-17187400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr21:17162000-17182000	Weak transcription	Osteobl	bone
33	chr21:17162400-17179200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr21:17162800-17179800	Weak transcription	HSMMtube	muscle
35	chr21:17164600-17183400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr21:17167000-17181600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr21:17168200-17181000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr21:17168800-17181200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr21:17169000-17181400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
40	chr21:17169000-17194200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
41	chr21:17169600-17183000	Weak transcription	HUVEC	blood vessel
42	chr21:17170000-17179800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr21:17170000-17181800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
44	chr21:17170000-17185000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr21:17170200-17179800	Weak transcription	K562	blood
46	chr21:17170400-17178400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr21:17170400-17183200	Weak transcription	GM12878-XiMat	blood
48	chr21:17170400-17185800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
49	chr21:17170800-17179800	Weak transcription	A549	lung
50	chr21:17170800-17180000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links