Variant report

Variant	rs6860581
Chromosome Location	chr5:126377240-126377241
allele	A/G
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:126376205..126378561-chr5:126406110..126410141,3	MCF-7	breast:
2	chr5:126365329..126367894-chr5:126376980..126379540,3	K562	blood:
3	chr5:126199073..126201681-chr5:126376638..126378571,2	K562	blood:
4	chr5:126373053..126375255-chr5:126375735..126378534,4	MCF-7	breast:
5	chr5:126367052..126370005-chr5:126376453..126379240,2	MCF-7	breast:
6	chr5:126368719..126372377-chr5:126376805..126380284,3	K562	blood:
7	chr5:126370445..126372377-chr5:126376805..126378615,2	K562	blood:
8	chr5:126373483..126375318-chr5:126376410..126378447,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000173926	Chromatin interaction
ENSG00000164241	Chromatin interaction

Extended variants
information (count: 164 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:162)

rs_ID	r²[population]
rs10040840	1.00[CHB][hapmap];0.96[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap]
rs10075097	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10519920	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12652390	0.84[CHD][hapmap];0.81[GIH][hapmap];0.85[JPT][hapmap]
rs12652417	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12653000	0.85[JPT][hapmap]
rs12653444	0.89[ASN][1000 genomes]
rs12653823	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12654717	1.00[CHB][hapmap];0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs12654725	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12654808	0.84[CHD][hapmap];0.82[GIH][hapmap];0.85[JPT][hapmap]
rs12655006	1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12655223	0.82[GIH][hapmap]
rs12655258	1.00[CHB][hapmap];0.96[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12655319	0.85[JPT][hapmap]
rs12655435	0.89[ASN][1000 genomes]
rs12655699	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12655726	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12655928	0.82[JPT][hapmap]
rs12655991	0.84[CHD][hapmap];0.82[GIH][hapmap];0.85[JPT][hapmap]
rs12656223	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[LWK][hapmap];0.87[MKK][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12656537	0.82[JPT][hapmap]
rs12656837	1.00[CHB][hapmap];0.96[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12658138	1.00[CHB][hapmap];0.96[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12658174	0.84[CHD][hapmap];0.82[GIH][hapmap];0.85[JPT][hapmap]
rs12658599	0.85[JPT][hapmap]
rs12658822	0.84[CHD][hapmap];0.82[GIH][hapmap];0.85[JPT][hapmap]
rs12659476	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12659614	0.84[CHD][hapmap];0.82[GIH][hapmap];0.85[JPT][hapmap]
rs12659633	1.00[ASN][1000 genomes]
rs17165213	0.89[GIH][hapmap]
rs17165228	0.84[CHD][hapmap];0.85[JPT][hapmap]
rs17165234	1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs17165236	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17165239	0.96[ASN][1000 genomes]
rs17165244	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17165248	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17165249	0.84[CHD][hapmap];0.82[GIH][hapmap];0.85[JPT][hapmap]
rs17165251	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34416835	0.86[ASN][1000 genomes]
rs34738240	0.86[ASN][1000 genomes]
rs35566904	0.86[ASN][1000 genomes]
rs36091921	0.86[ASN][1000 genomes]
rs3812061	0.84[CHD][hapmap];0.82[GIH][hapmap];0.85[JPT][hapmap]
rs4141169	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs4141170	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55792418	0.86[ASN][1000 genomes]
rs55802546	0.89[ASN][1000 genomes]
rs56073877	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56094173	0.86[ASN][1000 genomes]
rs56122855	0.83[ASN][1000 genomes]
rs56124224	1.00[ASN][1000 genomes]
rs56272610	0.89[ASN][1000 genomes]
rs56279346	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56688052	0.86[ASN][1000 genomes]
rs56786115	0.86[ASN][1000 genomes]
rs57032367	0.86[ASN][1000 genomes]
rs57285842	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57833976	0.86[ASN][1000 genomes]
rs57915728	0.89[ASN][1000 genomes]
rs58030771	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58164143	1.00[ASN][1000 genomes]
rs58249730	0.86[ASN][1000 genomes]
rs58262537	0.86[ASN][1000 genomes]
rs58527455	0.89[ASN][1000 genomes]
rs58646561	0.86[ASN][1000 genomes]
rs58754116	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59459356	0.86[ASN][1000 genomes]
rs59643871	0.86[ASN][1000 genomes]
rs59676931	0.86[ASN][1000 genomes]
rs59770843	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59814275	0.86[ASN][1000 genomes]
rs60138815	0.86[ASN][1000 genomes]
rs60615137	0.86[ASN][1000 genomes]
rs60781824	0.86[ASN][1000 genomes]
rs60889784	0.86[ASN][1000 genomes]
rs60892581	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61279308	0.89[ASN][1000 genomes]
rs61544197	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61679093	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61685918	0.86[ASN][1000 genomes]
rs61697996	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6595747	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6860157	1.00[CEU][hapmap]
rs6862462	0.80[ASN][1000 genomes]
rs6864607	1.00[CHB][hapmap];0.96[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap]
rs6870711	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6872893	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6877692	1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6882025	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6886131	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6892168	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73335490	0.82[ASN][1000 genomes]
rs73335494	0.82[ASN][1000 genomes]
rs73335498	0.85[ASN][1000 genomes]
rs73335501	0.85[ASN][1000 genomes]
rs73337225	0.85[ASN][1000 genomes]
rs73337229	0.86[ASN][1000 genomes]
rs73337233	0.86[ASN][1000 genomes]
rs73337299	0.89[ASN][1000 genomes]
rs73339248	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73339251	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73339283	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73339293	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73783496	0.86[ASN][1000 genomes]
rs73783501	0.86[ASN][1000 genomes]
rs73783503	0.89[ASN][1000 genomes]
rs73783504	0.89[ASN][1000 genomes]
rs73783506	0.89[ASN][1000 genomes]
rs73783507	0.89[ASN][1000 genomes]
rs73783529	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73786207	0.86[ASN][1000 genomes]
rs73786209	0.86[ASN][1000 genomes]
rs73786212	0.86[ASN][1000 genomes]
rs73786239	0.86[ASN][1000 genomes]
rs73786240	0.86[ASN][1000 genomes]
rs73786241	0.86[ASN][1000 genomes]
rs73786242	0.86[ASN][1000 genomes]
rs73786244	0.86[ASN][1000 genomes]
rs73786246	0.86[ASN][1000 genomes]
rs73786247	0.86[ASN][1000 genomes]
rs73786249	0.86[ASN][1000 genomes]
rs73786250	0.86[ASN][1000 genomes]
rs73786251	0.86[ASN][1000 genomes]
rs73786252	0.86[ASN][1000 genomes]
rs73786253	0.86[ASN][1000 genomes]
rs73786255	0.86[ASN][1000 genomes]
rs73786259	0.86[ASN][1000 genomes]
rs73786260	0.86[ASN][1000 genomes]
rs73786261	0.86[ASN][1000 genomes]
rs73786262	0.86[ASN][1000 genomes]
rs73786264	0.86[ASN][1000 genomes]
rs73786265	0.86[ASN][1000 genomes]
rs73786266	0.86[ASN][1000 genomes]
rs73786267	0.86[ASN][1000 genomes]
rs73786268	0.86[ASN][1000 genomes]
rs73786269	0.86[ASN][1000 genomes]
rs73786270	0.86[ASN][1000 genomes]
rs73786271	0.86[ASN][1000 genomes]
rs73786272	0.84[ASN][1000 genomes]
rs73786276	0.89[ASN][1000 genomes]
rs73786277	0.89[ASN][1000 genomes]
rs73786278	0.89[ASN][1000 genomes]
rs73786280	0.89[ASN][1000 genomes]
rs73786281	0.89[ASN][1000 genomes]
rs73786282	0.89[ASN][1000 genomes]
rs73786283	0.89[ASN][1000 genomes]
rs73786284	0.89[ASN][1000 genomes]
rs73786285	0.89[ASN][1000 genomes]
rs73786287	0.89[ASN][1000 genomes]
rs73786288	0.89[ASN][1000 genomes]
rs73786290	0.89[ASN][1000 genomes]
rs73786294	0.89[ASN][1000 genomes]
rs73786295	0.89[ASN][1000 genomes]
rs73786298	0.89[ASN][1000 genomes]
rs73787403	0.89[ASN][1000 genomes]
rs73787404	0.89[ASN][1000 genomes]
rs73787406	0.89[ASN][1000 genomes]
rs7701976	1.00[CHB][hapmap];0.96[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap]
rs7709865	0.85[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7715377	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9918233	1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[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	nsv1024265	chr5:126213004-126691163	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv869897	chr5:126224358-126445210	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:126367600-126382000	Weak transcription	Primary B cells from cord blood	blood
2	chr5:126367600-126391800	Weak transcription	GM12878-XiMat	blood
3	chr5:126368000-126387200	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr5:126370200-126379000	Weak transcription	Primary T cells from cord blood	blood
5	chr5:126372200-126391600	Weak transcription	Primary hematopoietic stem cells	blood
6	chr5:126374400-126385000	Weak transcription	Small Intestine	intestine
7	chr5:126374600-126408400	Weak transcription	Psoas Muscle	Psoas
8	chr5:126375600-126377400	Enhancers	H9 Cell Line	embryonic stem cell
9	chr5:126375800-126377400	Enhancers	Fetal Intestine Large	intestine
10	chr5:126375800-126377600	Enhancers	H1 Cell Line	embryonic stem cell
11	chr5:126375800-126378000	Enhancers	Fetal Intestine Small	intestine
12	chr5:126375800-126378400	Enhancers	HMEC	breast
13	chr5:126376000-126377400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr5:126376000-126377400	Enhancers	Left Ventricle	heart
15	chr5:126376000-126378000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr5:126376000-126391800	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr5:126376200-126377400	Enhancers	Cortex derived primary cultured neurospheres	brain
18	chr5:126376200-126377400	Flanking Active TSS	Duodenum Mucosa	Duodenum
19	chr5:126376200-126377800	Enhancers	Fetal Heart	heart
20	chr5:126376200-126378000	Enhancers	Lung	lung
21	chr5:126376200-126378400	Enhancers	Muscle Satellite Cultured Cells	--
22	chr5:126376200-126378800	Enhancers	iPS-18 Cell Line	embryonic stem cell
23	chr5:126376400-126378000	Enhancers	Brain Anterior Caudate	brain
24	chr5:126376400-126378200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr5:126376400-126378200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr5:126376400-126378200	Enhancers	K562	blood
27	chr5:126376400-126378800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr5:126376600-126377400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr5:126376600-126377400	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
30	chr5:126376600-126377400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
31	chr5:126376600-126377400	Enhancers	Pancreas	Pancrea
32	chr5:126376600-126377400	Enhancers	Skeletal Muscle Male	skeletal muscle
33	chr5:126376600-126377400	Flanking Active TSS	HUVEC	blood vessel
34	chr5:126376600-126377600	Enhancers	Breast Myoepithelial Primary Cells	Breast
35	chr5:126376600-126378000	Enhancers	Right Ventricle	heart
36	chr5:126376600-126378200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr5:126376600-126378200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr5:126376600-126378200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr5:126376600-126378200	Enhancers	Aorta	Aorta
40	chr5:126376600-126378200	Enhancers	Right Atrium	heart
41	chr5:126376600-126378200	Enhancers	HSMM	muscle
42	chr5:126376600-126378200	Enhancers	NH-A	brain
43	chr5:126376800-126377400	Enhancers	NHDF-Ad	bronchial
44	chr5:126376800-126378000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr5:126376800-126378200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr5:126376800-126378200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr5:126377000-126377400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr5:126377000-126377400	Active TSS	Colonic Mucosa	Colon
49	chr5:126377000-126377400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
50	chr5:126377000-126377400	Flanking Active TSS	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links