Variant report

Variant	rs9349844
Chromosome Location	chr6:56956494-56956495
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:56954866..56956566-chr6:56964924..56967496,2	MCF-7	breast:
2	chr6:56954591..56956568-chr6:57036921..57038610,2	MCF-7	breast:
3	chr6:56818533..56822842-chr6:56954657..56959004,6	K562	blood:

Variant related genes	Relation type
ENSG00000151914	Chromatin interaction
ENSG00000112208	Chromatin interaction
ENSG00000226803	Chromatin interaction
ENSG00000151917	Chromatin interaction
ENSG00000112200	Chromatin interaction

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs1002996	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1040461	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12175661	0.83[AMR][1000 genomes]
rs1556245	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16888316	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1993118	0.83[AMR][1000 genomes]
rs2273919	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3757296	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4510664	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58705880	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61740375	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62415861	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62415862	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62415863	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62415864	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62415865	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62415878	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62415879	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62415880	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62415883	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62415884	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62415885	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62417430	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6459179	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6907653	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6932278	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72867038	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72867054	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72867059	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72867062	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7749960	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7766234	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7771328	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9296860	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9296861	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9349845	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9357936	0.80[AMR][1000 genomes]
rs9357939	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9357940	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9357941	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9367706	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9367707	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9367709	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9367710	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9367711	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9367713	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9367714	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9370559	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9370561	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9370562	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9370563	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9370567	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9370568	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9382684	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9382685	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9382686	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9382691	0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9396254	0.80[AMR][1000 genomes]
rs9396255	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9396258	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9396260	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9396261	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9396263	0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9464416	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9464418	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9464419	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9475768	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9475774	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9475778	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9475781	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9475782	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9475783	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9475788	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv934026	chr6:56382056-57184218	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv533050	chr6:56504480-57297586	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1021651	chr6:56569444-56966319	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv538228	chr6:56569444-56966319	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	esv3430228	chr6:56830972-57079281	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
7	nsv350038	chr6:56953752-56960124	Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56954000-56966800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:56955200-56956600	Weak transcription	Stomach Mucosa	stomach
3	chr6:56955200-56956800	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr6:56955200-56958000	Weak transcription	Aorta	Aorta
5	chr6:56955200-56960200	Weak transcription	Fetal Muscle Trunk	muscle
6	chr6:56955200-56960200	Weak transcription	Left Ventricle	heart
7	chr6:56955200-56960600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr6:56955200-56961600	Weak transcription	Lung	lung
9	chr6:56955200-56961800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr6:56955200-56962200	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr6:56955200-56962800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:56955200-56963800	Weak transcription	Colonic Mucosa	Colon
13	chr6:56955200-56964200	Weak transcription	Psoas Muscle	Psoas
14	chr6:56955200-56964400	Weak transcription	Pancreas	Pancrea
15	chr6:56955200-56964400	Weak transcription	Spleen	Spleen
16	chr6:56955200-56965400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr6:56955200-56965600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr6:56955200-56965800	Weak transcription	Esophagus	oesophagus
19	chr6:56956200-56956600	Enhancers	Primary T cells fromperipheralblood	blood
20	chr6:56956200-56956600	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
21	chr6:56956200-56956600	Genic enhancers	Fetal Muscle Leg	muscle
22	chr6:56956200-56956600	Genic enhancers	Fetal Thymus	thymus
23	chr6:56956200-56956800	Flanking Active TSS	Primary T cells from cord blood	blood
24	chr6:56956200-56956800	Enhancers	Primary T killer memory cells from peripheral blood	blood
25	chr6:56956200-56956800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr6:56956200-56956800	Flanking Active TSS	Hela-S3	cervix
27	chr6:56956200-56956800	Active TSS	NHLF	lung
28	chr6:56956200-56957000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr6:56956200-56957000	Enhancers	Primary neutrophils fromperipheralblood	blood
30	chr6:56956200-56957000	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr6:56956200-56957000	Genic enhancers	Adipose Nuclei	Adipose
32	chr6:56956200-56957000	Enhancers	Fetal Stomach	stomach
33	chr6:56956200-56957000	Enhancers	Small Intestine	intestine
34	chr6:56956200-56957200	Genic enhancers	Primary hematopoietic stem cells	blood
35	chr6:56956200-56957200	Enhancers	Rectal Mucosa Donor 31	rectum
36	chr6:56956200-56957400	Enhancers	Liver	Liver
37	chr6:56956200-56957800	Genic enhancers	Primary B cells from peripheral blood	blood
38	chr6:56956200-56957800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
39	chr6:56956200-56957800	Genic enhancers	Fetal Intestine Large	intestine
40	chr6:56956200-56958000	Genic enhancers	Primary B cells from cord blood	blood
41	chr6:56956200-56958400	Enhancers	Fetal Heart	heart
42	chr6:56956200-56958800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
43	chr6:56956200-56959000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
44	chr6:56956200-56960200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
45	chr6:56956200-56960200	Enhancers	Primary T helper cells fromperipheralblood	blood
46	chr6:56956400-56956600	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
47	chr6:56956400-56956600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
48	chr6:56956400-56956600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr6:56956400-56956600	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
50	chr6:56956400-56956600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links