Variant report

Variant	rs11004455
Chromosome Location	chr10:51499059-51499060
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	chr10:51498114..51501016-chr10:51502450..51504451,2	MCF-7	breast:
2	chr10:51497870..51501630-chr10:51543327..51546015,3	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11003820	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11004361	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11005274	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11005729	1.00[AMR][1000 genomes]
rs12246321	1.00[AMR][1000 genomes]
rs12247763	1.00[AMR][1000 genomes]
rs12249198	1.00[AMR][1000 genomes]
rs12250658	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16914406	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16914420	1.00[AMR][1000 genomes]
rs56301424	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59436713	1.00[AMR][1000 genomes]
rs60528425	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74131167	0.89[AFR][1000 genomes]
rs74131171	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74131182	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758219	chr10:50971974-51925166	Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	esv2759749	chr10:50971974-51925166	Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
3	nsv428232	chr10:50971974-51925166	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
4	nsv895381	chr10:51094660-51515534	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	esv1830900	chr10:51187411-51903662	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
6	nsv895383	chr10:51260747-51724915	Strong transcription Enhancers Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
7	nsv895382	chr10:51330433-51515534	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv1048474	chr10:51330433-51545872	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
9	esv1796295	chr10:51371074-51521245	Active TSS Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
10	esv1806057	chr10:51371074-51521245	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
11	esv1821612	chr10:51371074-51521245	Enhancers Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
12	esv1825752	chr10:51371074-51521245	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
13	esv1844388	chr10:51371074-51521245	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
14	nsv427864	chr10:51371074-51521245	Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
15	nsv508583	chr10:51385007-51595892	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
16	esv1850613	chr10:51393995-51501515	Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:51490600-51503200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr10:51495000-51501600	Enhancers	HepG2	liver
3	chr10:51495800-51506800	Weak transcription	Right Atrium	heart
4	chr10:51496400-51500800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr10:51496400-51501800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr10:51496600-51501600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr10:51496600-51502200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr10:51496800-51499800	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr10:51496800-51505600	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr10:51497000-51500400	Enhancers	Primary T cells fromperipheralblood	blood
11	chr10:51497000-51502200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr10:51497000-51502400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr10:51497000-51507200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
14	chr10:51497200-51500000	Enhancers	Fetal Thymus	thymus
15	chr10:51497200-51504400	Enhancers	Spleen	Spleen
16	chr10:51497400-51500400	Weak transcription	K562	blood
17	chr10:51497400-51502600	Weak transcription	Esophagus	oesophagus
18	chr10:51497400-51502800	Enhancers	Primary hematopoietic stem cells	blood
19	chr10:51497400-51505400	Enhancers	Primary B cells from peripheral blood	blood
20	chr10:51497600-51500000	Enhancers	Dnd41	blood
21	chr10:51497600-51501600	Enhancers	Placenta	Placenta
22	chr10:51497800-51499600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
23	chr10:51497800-51500600	Enhancers	Placenta Amnion	Placenta Amnion
24	chr10:51497800-51500800	Enhancers	Lung	lung
25	chr10:51497800-51502000	Enhancers	Primary B cells from cord blood	blood
26	chr10:51498000-51499200	Enhancers	Fetal Muscle Trunk	muscle
27	chr10:51498000-51499200	Enhancers	HUVEC	blood vessel
28	chr10:51498000-51499200	Enhancers	Monocytes-CD14+_RO01746	blood
29	chr10:51498000-51499800	Enhancers	Thymus	Thymus
30	chr10:51498000-51501200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
31	chr10:51498200-51499200	Enhancers	Primary monocytes fromperipheralblood	blood
32	chr10:51498200-51500000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr10:51498200-51501200	Enhancers	ES-I3 Cell Line	embryonic stem cell
34	chr10:51498400-51499200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
35	chr10:51498400-51499200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
36	chr10:51498400-51499400	Enhancers	H1 Cell Line	embryonic stem cell
37	chr10:51498400-51499400	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
38	chr10:51498400-51499600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr10:51498400-51499600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr10:51498400-51501200	Enhancers	HUES6 Cell Line	embryonic stem cell
41	chr10:51498600-51499200	Enhancers	HUES64 Cell Line	embryonic stem cell
42	chr10:51498600-51499400	Enhancers	iPS-18 Cell Line	embryonic stem cell
43	chr10:51498600-51499400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
44	chr10:51498600-51499400	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
45	chr10:51498600-51499600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr10:51498600-51500200	Enhancers	NHDF-Ad	bronchial
47	chr10:51498600-51502200	Enhancers	Primary neutrophils fromperipheralblood	blood
48	chr10:51498800-51499600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr10:51498800-51500000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
50	chr10:51498800-51500200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links