Variant report

Variant	rs3829481
Chromosome Location	chr15:33202425-33202426
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	chr15:33194367..33197072-chr15:33201375..33203984,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10519763	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10519766	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1122090	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11852876	0.91[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11855526	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12912842	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12916094	0.92[CHB][hapmap]
rs1450116	0.90[ASN][1000 genomes]
rs1451888	1.00[CEU][hapmap]
rs16960803	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16960807	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16961044	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16961154	0.91[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16961611	0.91[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2034478	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2034479	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2034609	0.98[ASN][1000 genomes]
rs2339165	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs28393295	1.00[ASN][1000 genomes]
rs28415939	0.98[ASN][1000 genomes]
rs28453761	1.00[ASN][1000 genomes]
rs28719161	1.00[ASN][1000 genomes]
rs28735093	0.83[ASN][1000 genomes]
rs3812936	0.91[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs41473744	0.91[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs57814724	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs66965190	0.98[ASN][1000 genomes]
rs7182893	0.82[CHB][hapmap]
rs72719309	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72719314	1.00[EUR][1000 genomes]
rs72719318	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72719322	1.00[EUR][1000 genomes]
rs72719327	1.00[EUR][1000 genomes]
rs72719330	1.00[ASN][1000 genomes]
rs72719333	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72719337	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72719339	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72719341	1.00[EUR][1000 genomes]
rs8026200	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs8027369	0.89[CHB][hapmap];0.81[JPT][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422296	chr15:32798938-33221215	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv456785	chr15:32926076-33352989	Genic enhancers Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv568913	chr15:32926076-33352989	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv832962	chr15:33111517-33239736	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv903978	chr15:33144202-33308641	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv903979	chr15:33144202-33550256	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
7	nsv1041609	chr15:33148035-33355999	Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv542339	chr15:33148035-33355999	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
9	nsv903980	chr15:33149087-33264201	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
10	nsv1052966	chr15:33149753-33541951	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
11	nsv542340	chr15:33149753-33541951	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
12	nsv568917	chr15:33167171-33304172	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33154400-33216800	Weak transcription	Fetal Thymus	thymus
2	chr15:33155000-33208200	Weak transcription	Fetal Kidney	kidney
3	chr15:33166200-33211800	Weak transcription	HSMMtube	muscle
4	chr15:33191000-33210800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr15:33191800-33214600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr15:33192400-33210600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr15:33192600-33210800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr15:33195000-33215000	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr15:33197600-33219000	Weak transcription	Placenta	Placenta
10	chr15:33197800-33217400	Weak transcription	Lung	lung
11	chr15:33198200-33207200	Weak transcription	Thymus	Thymus
12	chr15:33199200-33212800	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr15:33199600-33202800	Genic enhancers	NHLF	lung
14	chr15:33200000-33202800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr15:33200200-33203000	Enhancers	NHDF-Ad	bronchial
16	chr15:33200200-33205600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr15:33200200-33205600	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr15:33200400-33203800	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr15:33200600-33202800	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr15:33200600-33208600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr15:33200600-33210800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr15:33200800-33204000	Enhancers	Primary B cells from peripheral blood	blood
23	chr15:33200800-33214200	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr15:33201000-33202600	Enhancers	NH-A	brain
25	chr15:33201000-33202800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr15:33201000-33203200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr15:33201000-33203800	Weak transcription	Right Atrium	heart
28	chr15:33201200-33203600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr15:33201200-33207800	Weak transcription	Stomach Smooth Muscle	stomach
30	chr15:33201400-33202600	Enhancers	Muscle Satellite Cultured Cells	--
31	chr15:33201400-33210400	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr15:33201600-33203400	Weak transcription	Adipose Nuclei	Adipose
33	chr15:33202000-33202600	Genic enhancers	HSMM	muscle
34	chr15:33202000-33205800	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr15:33202200-33202600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr15:33202200-33202600	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr15:33202200-33202600	Genic enhancers	Osteobl	bone
38	chr15:33202200-33205800	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr15:33202400-33202600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr15:33202400-33202600	Enhancers	Gastric	stomach
41	chr15:33202400-33202800	ZNF genes & repeats	Pancreas	Pancrea
42	chr15:33202400-33210000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links