Variant report

Variant	rs56043110
Chromosome Location	chr3:136177348-136177349
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	chr3:136166580..136169214-chr3:136176961..136178739,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs34149860	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55655018	1.00[EUR][1000 genomes]
rs55674785	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56183552	1.00[EUR][1000 genomes]
rs56381882	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58021491	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58206781	1.00[EUR][1000 genomes]
rs58336248	1.00[EUR][1000 genomes]
rs58493992	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58544452	1.00[EUR][1000 genomes]
rs59778182	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60778309	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61160497	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61400878	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6790219	1.00[EUR][1000 genomes]
rs73863333	1.00[EUR][1000 genomes]
rs73863336	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73863337	1.00[EUR][1000 genomes]
rs73863608	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73863611	1.00[EUR][1000 genomes]
rs73863618	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73863622	1.00[EUR][1000 genomes]
rs73863623	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73863625	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73863630	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73863634	1.00[EUR][1000 genomes]
rs73863640	1.00[EUR][1000 genomes]
rs73863911	0.82[AMR][1000 genomes]
rs7613584	1.00[EUR][1000 genomes]
rs7626261	1.00[EUR][1000 genomes]
rs7635059	0.82[AMR][1000 genomes]
rs7646127	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948461	chr3:135969755-136349636	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv877519	chr3:136035737-136279390	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv877520	chr3:136056861-136310985	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv877521	chr3:136069286-136310985	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv877522	chr3:136088038-136241028	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv877523	chr3:136088038-136310985	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	nsv520012	chr3:136088038-136314119	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
8	nsv877524	chr3:136112109-136295283	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
9	nsv877525	chr3:136112109-136310985	Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
10	nsv877526	chr3:136149139-136310985	ZNF genes & repeats Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136172400-136178600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:136172600-136177400	ZNF genes & repeats	Fetal Muscle Leg	muscle
3	chr3:136173000-136178200	ZNF genes & repeats	Fetal Intestine Small	intestine
4	chr3:136173000-136181400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr3:136173200-136177600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr3:136173200-136177600	ZNF genes & repeats	Fetal Intestine Large	intestine
7	chr3:136173200-136178400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
8	chr3:136173400-136177800	ZNF genes & repeats	Primary B cells from peripheral blood	blood
9	chr3:136173400-136178000	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
10	chr3:136173600-136177400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
11	chr3:136173600-136177600	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr3:136173600-136178000	ZNF genes & repeats	Primary B cells from cord blood	blood
13	chr3:136173800-136177800	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr3:136174000-136177600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
15	chr3:136174000-136177800	ZNF genes & repeats	Fetal Lung	lung
16	chr3:136174000-136178000	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr3:136174000-136178000	ZNF genes & repeats	GM12878-XiMat	blood
18	chr3:136174000-136178400	ZNF genes & repeats	Primary T cells from cord blood	blood
19	chr3:136174000-136178600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
20	chr3:136174200-136177400	ZNF genes & repeats	Primary T killer naive cells fromperipheralblood	blood
21	chr3:136174200-136177400	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
22	chr3:136174200-136177600	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
23	chr3:136174200-136177600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr3:136174200-136177800	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
25	chr3:136174200-136177800	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
26	chr3:136174200-136177800	ZNF genes & repeats	Duodenum Mucosa	Duodenum
27	chr3:136174200-136179000	ZNF genes & repeats	Dnd41	blood
28	chr3:136174400-136177400	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
29	chr3:136174600-136177600	ZNF genes & repeats	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr3:136175000-136180600	Weak transcription	A549	lung
31	chr3:136175400-136177400	ZNF genes & repeats	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr3:136175400-136177400	ZNF genes & repeats	Primary T helper 17 cells PMA-I stimulated	--
33	chr3:136175600-136177400	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
34	chr3:136175600-136177600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr3:136175600-136177800	ZNF genes & repeats	Placenta	Placenta
36	chr3:136175600-136178400	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
37	chr3:136175800-136177400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
38	chr3:136175800-136177400	ZNF genes & repeats	Fetal Stomach	stomach
39	chr3:136175800-136177400	ZNF genes & repeats	Fetal Thymus	thymus
40	chr3:136175800-136177400	ZNF genes & repeats	Thymus	Thymus
41	chr3:136175800-136177600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr3:136175800-136178000	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr3:136175800-136179600	Weak transcription	Fetal Heart	heart
44	chr3:136176400-136181000	Weak transcription	Fetal Kidney	kidney
45	chr3:136176400-136186000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
46	chr3:136176400-136190600	Weak transcription	Gastric	stomach
47	chr3:136176400-136194200	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr3:136176400-136194400	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr3:136176400-136194400	Weak transcription	HSMM	muscle
50	chr3:136176400-136314200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links