Variant report

Variant	rs9369073
Chromosome Location	chr6:38606559-38606560
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:38565254..38567561-chr6:38606168..38608897,2	MCF-7	breast:
2	chr6:38605277..38607230-chr6:38608690..38610298,2	K562	blood:

Variant related genes	Relation type
ENSG00000183826	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10947753	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1579028	0.92[CHB][hapmap];0.92[JPT][hapmap]
rs3799703	1.00[JPT][hapmap]
rs4141854	0.84[GIH][hapmap];1.00[MEX][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4631264	0.84[GIH][hapmap];1.00[MEX][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4711552	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4711553	0.81[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711554	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711555	0.83[EUR][1000 genomes]
rs4714171	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4714173	0.81[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.81[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4714174	0.93[CHB][hapmap];0.93[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58362455	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58648636	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6458065	0.81[JPT][hapmap]
rs6905545	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6925790	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6932648	0.86[CHB][hapmap];0.92[JPT][hapmap]
rs7750482	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7750997	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7752972	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7753374	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7767791	1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7775968	0.81[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296254	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296255	0.81[ASW][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];1.00[MEX][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9349092	0.93[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9349093	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9349094	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9366965	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9366969	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9369065	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9369069	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs937662	1.00[JPT][hapmap]
rs9380757	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9380759	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9380760	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9380762	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9380763	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9394513	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9394514	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9394515	0.84[GIH][hapmap];1.00[MEX][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9394516	0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9394519	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394523	0.86[CHB][hapmap];0.92[JPT][hapmap]
rs9394524	0.86[CHB][hapmap];0.92[JPT][hapmap]
rs9462439	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9462441	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9462442	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9462446	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9462448	1.00[JPT][hapmap]
rs9462451	0.86[CHB][hapmap];0.92[JPT][hapmap]
rs9470901	1.00[CHB][hapmap];0.91[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9470902	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9470906	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9470908	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9470916	0.81[ASW][hapmap];0.93[CHB][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap]
rs9470917	0.86[CHB][hapmap];0.92[JPT][hapmap]
rs9470918	0.86[CHB][hapmap];0.92[JPT][hapmap]

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	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	esv2758049	chr6:38588969-38711085	Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	esv2759421	chr6:38588969-38711085	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv427754	chr6:38588969-38711085	Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
6	nsv428144	chr6:38588969-38711085	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38599600-38606600	Weak transcription	Lung	lung
2	chr6:38600600-38606600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr6:38600800-38606600	Weak transcription	Right Ventricle	heart
4	chr6:38601200-38607000	Weak transcription	Gastric	stomach
5	chr6:38601600-38606600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
6	chr6:38602000-38606600	Weak transcription	Psoas Muscle	Psoas
7	chr6:38602200-38606600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr6:38602400-38606600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr6:38602600-38606600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr6:38602800-38606600	Weak transcription	NH-A	brain
11	chr6:38603000-38606600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr6:38603400-38606600	Weak transcription	Left Ventricle	heart
13	chr6:38603800-38606600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
14	chr6:38603800-38606600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
15	chr6:38604200-38606600	Weak transcription	Thymus	Thymus
16	chr6:38604200-38606800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
17	chr6:38604600-38606600	Weak transcription	Stomach Mucosa	stomach
18	chr6:38604600-38606600	Weak transcription	Spleen	Spleen
19	chr6:38605000-38606600	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr6:38605200-38606600	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr6:38605200-38607000	Weak transcription	Small Intestine	intestine
22	chr6:38605400-38606600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
23	chr6:38605600-38606600	Enhancers	Primary T helper naive cells from peripheral blood	blood
24	chr6:38605800-38606600	Weak transcription	Ovary	ovary
25	chr6:38605800-38606800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
26	chr6:38606000-38606600	Enhancers	Breast Myoepithelial Primary Cells	Breast
27	chr6:38606000-38606600	Enhancers	Liver	Liver
28	chr6:38606000-38606600	Enhancers	Brain Germinal Matrix	brain
29	chr6:38606000-38606600	Enhancers	Dnd41	blood
30	chr6:38606200-38606600	Enhancers	Primary neutrophils fromperipheralblood	blood
31	chr6:38606200-38606600	Enhancers	Primary T cells from cord blood	blood
32	chr6:38606200-38606600	Enhancers	Primary T helper cells fromperipheralblood	blood
33	chr6:38606200-38606600	Enhancers	Primary T killer memory cells from peripheral blood	blood
34	chr6:38606200-38606600	Enhancers	Cortex derived primary cultured neurospheres	brain
35	chr6:38606200-38606600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
36	chr6:38606200-38606600	Active TSS	Fetal Brain Male	brain
37	chr6:38606200-38606600	Active TSS	Fetal Brain Female	brain
38	chr6:38606200-38606600	Enhancers	Fetal Intestine Small	intestine
39	chr6:38606200-38606600	Enhancers	Fetal Lung	lung
40	chr6:38606200-38606600	Enhancers	Monocytes-CD14+_RO01746	blood
41	chr6:38606200-38606800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr6:38606200-38606800	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
43	chr6:38606200-38606800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr6:38606200-38606800	Flanking Active TSS	Fetal Heart	heart
45	chr6:38606200-38607000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr6:38606200-38607000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr6:38606200-38607000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
48	chr6:38606200-38607000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
49	chr6:38606200-38607000	Flanking Active TSS	Brain Anterior Caudate	brain
50	chr6:38606200-38607000	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet

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