Variant report

Variant	rs6571934
Chromosome Location	chr14:39862969-39862970
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:39852325..39854478-chr14:39862389..39864800,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000221645	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10130584	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs10130959	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10142118	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10143290	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10146207	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10148678	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10148762	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10483539	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11157065	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11844333	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11844337	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11844410	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11845552	0.83[AMR][1000 genomes]
rs11849739	0.92[AMR][1000 genomes]
rs11850682	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12434446	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12587760	0.85[CEU][hapmap];0.90[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12589259	0.95[AMR][1000 genomes]
rs12590681	0.85[AMR][1000 genomes]
rs17623137	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs17623398	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs17696146	0.95[AMR][1000 genomes]
rs17696446	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs17696497	0.95[AMR][1000 genomes]
rs1955725	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2025029	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2092723	0.85[AMR][1000 genomes]
rs2094275	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2117338	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2148506	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2182522	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2415548	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4899219	1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs4899237	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57001152	0.80[AMR][1000 genomes]
rs6571914	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6571916	1.00[JPT][hapmap]
rs6571917	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs6571918	0.85[AFR][1000 genomes]
rs6571935	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6571936	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7140561	1.00[CHB][hapmap];1.00[YRI][hapmap]
rs7149131	1.00[JPT][hapmap];0.85[AMR][1000 genomes]
rs7151017	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7156249	0.81[AMR][1000 genomes]
rs7158384	0.88[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7159584	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs72677604	0.87[AMR][1000 genomes]
rs72677610	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs72677622	0.95[AMR][1000 genomes]
rs72677624	0.95[AMR][1000 genomes]
rs72677630	0.95[AMR][1000 genomes]
rs72677635	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs72677640	0.95[AMR][1000 genomes]
rs72677641	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs72677644	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs72677648	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs8005849	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs8006198	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs8010635	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs8010826	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs8012235	0.85[AFR][1000 genomes];0.81[AMR][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	nsv1037183	chr14:39736939-39949233	Weak transcription Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv542048	chr14:39736939-39949233	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:39770800-39872400	Weak transcription	Colonic Mucosa	Colon
2	chr14:39818800-39867200	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr14:39835400-39872400	Weak transcription	Fetal Muscle Leg	muscle
4	chr14:39836200-39872800	Weak transcription	Esophagus	oesophagus
5	chr14:39836400-39870600	Weak transcription	Gastric	stomach
6	chr14:39840000-39863200	Weak transcription	Fetal Muscle Trunk	muscle
7	chr14:39840000-39863400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr14:39840000-39864000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr14:39840000-39867000	Weak transcription	Left Ventricle	heart
10	chr14:39840000-39867400	Weak transcription	Pancreas	Pancrea
11	chr14:39840000-39882600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr14:39840200-39867200	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr14:39840600-39864400	Weak transcription	Primary B cells from peripheral blood	blood
14	chr14:39841000-39865800	Weak transcription	Primary B cells from cord blood	blood
15	chr14:39841200-39867000	Weak transcription	Duodenum Mucosa	Duodenum
16	chr14:39846200-39864800	Weak transcription	NHEK	skin
17	chr14:39846200-39878800	Weak transcription	Right Ventricle	heart
18	chr14:39846400-39864600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr14:39846400-39867200	Weak transcription	Primary hematopoietic stem cells	blood
20	chr14:39846600-39864600	Weak transcription	HepG2	liver
21	chr14:39846600-39864600	Weak transcription	NH-A	brain
22	chr14:39846600-39864800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr14:39846600-39866600	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr14:39846800-39872400	Weak transcription	HSMMtube	muscle
25	chr14:39850400-39870800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr14:39851000-39866800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr14:39851200-39866000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr14:39851200-39868600	Weak transcription	Brain Cingulate Gyrus	brain
29	chr14:39851400-39868600	Weak transcription	Brain Hippocampus Middle	brain
30	chr14:39851400-39868600	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr14:39851800-39864600	Weak transcription	Fetal Intestine Large	intestine
32	chr14:39852800-39863400	Weak transcription	Primary neutrophils fromperipheralblood	blood
33	chr14:39852800-39864600	Weak transcription	Dnd41	blood
34	chr14:39853000-39867400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
35	chr14:39853000-39867400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
36	chr14:39853200-39866200	Weak transcription	GM12878-XiMat	blood
37	chr14:39853200-39867800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
38	chr14:39853600-39866200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
39	chr14:39853600-39867200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr14:39853600-39874200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
41	chr14:39853800-39863600	Weak transcription	Primary T cells from cord blood	blood
42	chr14:39854400-39872600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr14:39855200-39863400	Weak transcription	Spleen	Spleen
44	chr14:39855400-39864600	Weak transcription	HUVEC	blood vessel
45	chr14:39855400-39868800	Weak transcription	Aorta	Aorta
46	chr14:39856200-39864800	Weak transcription	Fetal Thymus	thymus
47	chr14:39856200-39867200	Weak transcription	Thymus	Thymus
48	chr14:39856400-39863600	Weak transcription	Fetal Intestine Small	intestine
49	chr14:39856400-39863600	Weak transcription	Fetal Stomach	stomach
50	chr14:39857000-39870400	Weak transcription	Brain Germinal Matrix	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links