Variant report

Variant	rs12526100
Chromosome Location	chr6:33592848-33592849
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:33591444..33593471-chr6:33595633..33598243,2	MCF-7	breast:
2	chr6:33586212..33588848-chr6:33589323..33592935,3	K562	blood:
3	chr6:33590320..33593181-chr6:33667665..33670096,2	MCF-7	breast:
4	chr6:33587647..33590168-chr6:33590912..33595599,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000096433	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10947417	0.89[ASN][1000 genomes]
rs12525769	0.94[EUR][1000 genomes]
rs13192436	0.89[ASN][1000 genomes]
rs13197265	0.95[EUR][1000 genomes]
rs13203795	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13206871	0.89[EUR][1000 genomes]
rs13219845	1.00[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs34213779	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs422652	0.84[EUR][1000 genomes]
rs494835	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71565395	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71565398	0.93[EUR][1000 genomes]
rs71565399	0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885770	chr6:33543409-33614127	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
2	nsv830638	chr6:33551202-33711346	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	46 gene(s)	inside rSNPs	diseases
3	nsv5250	chr6:33565017-33598370	Active TSS Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	24 gene(s)	inside rSNPs	diseases
4	esv1817557	chr6:33584788-33614127	Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	esv1813933	chr6:33587443-33614127	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv830639	chr6:33592022-33711346	Strong transcription Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33590200-33593000	Enhancers	Fetal Lung	lung
2	chr6:33590200-33600600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr6:33590400-33593000	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr6:33590400-33600200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:33590400-33600400	Weak transcription	Psoas Muscle	Psoas
6	chr6:33590600-33593200	Enhancers	Sigmoid Colon	Sigmoid Colon
7	chr6:33590800-33595400	Weak transcription	HSMMtube	muscle
8	chr6:33591000-33595000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr6:33591000-33595200	Weak transcription	HSMM	muscle
10	chr6:33591000-33595400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr6:33591000-33595600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr6:33591000-33595600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:33591000-33599000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:33591000-33600000	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr6:33591000-33600200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr6:33591000-33600600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr6:33591000-33600600	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr6:33591000-33600600	Weak transcription	Osteobl	bone
19	chr6:33591200-33593000	Genic enhancers	Lung	lung
20	chr6:33591200-33594200	Genic enhancers	Spleen	Spleen
21	chr6:33591200-33600800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr6:33591400-33595600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr6:33591400-33595600	Weak transcription	Right Atrium	heart
24	chr6:33591600-33593000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr6:33591600-33594400	Genic enhancers	HMEC	breast
26	chr6:33591600-33595400	Weak transcription	Adipose Nuclei	Adipose
27	chr6:33591600-33595400	Weak transcription	Gastric	stomach
28	chr6:33591600-33595600	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr6:33591600-33595600	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr6:33591600-33598200	Weak transcription	Right Ventricle	heart
31	chr6:33591800-33594600	Strong transcription	Fetal Stomach	stomach
32	chr6:33591800-33595400	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr6:33591800-33595400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
34	chr6:33591800-33595400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr6:33591800-33595600	Weak transcription	Esophagus	oesophagus
36	chr6:33591800-33595800	Weak transcription	Primary B cells from cord blood	blood
37	chr6:33591800-33597800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
38	chr6:33591800-33600200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
39	chr6:33592000-33593000	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr6:33592000-33594400	Strong transcription	NHLF	lung
41	chr6:33592000-33595400	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr6:33592000-33596000	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
43	chr6:33592000-33596800	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr6:33592000-33600200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr6:33592000-33600400	Genic enhancers	Fetal Intestine Small	intestine
46	chr6:33592200-33593000	Strong transcription	H9 Cell Line	embryonic stem cell
47	chr6:33592200-33595200	Weak transcription	Small Intestine	intestine
48	chr6:33592200-33595400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
49	chr6:33592200-33595400	Weak transcription	A549	lung
50	chr6:33592200-33595800	Strong transcription	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links