Variant report

Variant	rs1150661
Chromosome Location	chr6:26119488-26119489
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr6:26119221-26119578	MCF10A-Er-Src	breast:	n/a	n/a
2	FOS	chr6:26119150-26119578	MCF10A-Er-Src	breast:	n/a	n/a
3	STAT3	chr6:26119234-26119565	MCF10A-Er-Src	breast:	n/a	n/a
4	EGR1	chr6:26119112-26119768	HCT-116	colon:	n/a	chr6:26119438-26119448 chr6:26119436-26119450
5	TBL1XR1	chr6:26119412-26119625	K562	blood:	n/a	n/a
6	POLR2A	chr6:26119113-26119515	MCF10A-Er-Src	breast:	n/a	n/a
7	BCLAF1	chr6:26115089-26119628	K562	blood:	n/a	chr6:26116078-26116087
8	POLR2A	chr6:26112014-26135800	K562	blood:	n/a	n/a
9	KAP1	chr6:26119311-26119656	K562	blood:	n/a	n/a
10	CEBPB	chr6:26119331-26119515	A549	lung:	n/a	n/a
11	CEBPB	chr6:26119181-26119636	HCT-116	colon:	n/a	n/a
12	SP1	chr6:26119193-26119759	HCT-116	colon:	n/a	n/a
13	EGR1	chr6:26119228-26119623	K562	blood:	n/a	chr6:26119438-26119448 chr6:26119436-26119450
14	STAT3	chr6:26119236-26119604	MCF10A-Er-Src	breast:	n/a	n/a
15	JUND	chr6:26119289-26119558	K562	blood:	n/a	n/a
16	POLR2A	chr6:26111611-26119725	K562	blood:	n/a	n/a
17	EGR1	chr6:26119174-26119673	ECC-1	luminal epithelium:	n/a	chr6:26119438-26119448 chr6:26119436-26119450
18	MYC	chr6:26119249-26119651	MCF10A-Er-Src	breast:	n/a	chr6:26119457-26119465
19	STAT3	chr6:26119236-26119566	MCF10A-Er-Src	breast:	n/a	n/a
20	ATF1	chr6:26119267-26119560	K562	blood:	n/a	n/a
21	EGR1	chr6:26119266-26119559	ECC-1	luminal epithelium:	n/a	chr6:26119438-26119448 chr6:26119436-26119450
22	CEBPB	chr6:26119350-26119541	K562	blood:	n/a	n/a
23	RCOR1	chr6:26119279-26119641	K562	blood:	n/a	n/a
24	FOS	chr6:26119128-26119588	MCF10A-Er-Src	breast:	n/a	n/a
25	ARID3A	chr6:26119251-26119652	K562	blood:	n/a	n/a
26	EGR1	chr6:26119240-26119599	K562	blood:	n/a	chr6:26119438-26119448 chr6:26119436-26119450
27	POLR2A	chr6:26119264-26119960	K562	blood:	n/a	n/a
28	EGR1	chr6:26119061-26119770	HCT-116	colon:	n/a	chr6:26119438-26119448 chr6:26119436-26119450
29	POLR2A	chr6:26119187-26119545	HCT-116	colon:	n/a	n/a
30	CBX3	chr6:26119175-26119692	HCT-116	colon:	n/a	n/a
31	GATA2	chr6:26119351-26119570	SH-SY5Y	brain:	n/a	chr6:26119518-26119530 chr6:26119520-26119527 chr6:26119516-26119532 chr6:26119516-26119532 chr6:26119520-26119527 chr6:26119520-26119529 chr6:26119513-26119534 chr6:26119520-26119527 chr6:26119519-26119529
32	FOS	chr6:26119233-26119560	MCF10A-Er-Src	breast:	n/a	n/a
33	MYC	chr6:26119220-26119589	MCF10A-Er-Src	breast:	n/a	chr6:26119457-26119465
34	STAT3	chr6:26119199-26119576	MCF10A-Er-Src	breast:	n/a	n/a
35	YY1	chr6:26119272-26119517	HCT-116	colon:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:26119257..26128074-chr6:27097161..27104707,27	K562	blood:
2	chr3:72142216..72143736-chr6:26119290..26121939,2	MCF-7	breast:
3	chr6:26117832..26120400-chr6:27115975..27117561,2	K562	blood:
4	chr6:26017750..26036418-chr6:26116875..26130553,65	MCF-7	breast:
5	chr6:26053512..26063692-chr6:26116837..26127451,29	MCF-7	breast:
6	chr17:56707835..56709463-chr6:26118684..26121673,2	MCF-7	breast:

Variant related genes	Relation type
HIST1H2AC	TF binding region
ENSG00000187837	Chromatin interaction
ENSG00000137259	Chromatin interaction
ENSG00000124693	Chromatin interaction
ENSG00000124610	Chromatin interaction
ENSG00000212195	Chromatin interaction
ENSG00000198366	Chromatin interaction
ENSG00000196176	Chromatin interaction
ENSG00000196787	Chromatin interaction
ENSG00000124529	Chromatin interaction
ENSG00000124635	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1090949	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1150662	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1179007	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs169221	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs199735	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs199742	1.00[ASN][1000 genomes]
rs199746	1.00[ASN][1000 genomes]
rs199757	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2575172	1.00[ASN][1000 genomes]
rs2856648	1.00[ASN][1000 genomes]
rs61744067	1.00[ASN][1000 genomes]
rs62625325	1.00[ASN][1000 genomes]
rs62625345	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6903253	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6928277	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs707900	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs707903	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs807203	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs807206	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs807208	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs807209	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs807211	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs807213	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
2	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv1030351	chr6:25813178-26352046	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1189 gene(s)	inside rSNPs	diseases
4	nsv1023453	chr6:25853830-26528250	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1201 gene(s)	inside rSNPs	diseases
5	nsv1025237	chr6:25874326-26280867	Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1166 gene(s)	inside rSNPs	diseases
6	nsv538163	chr6:25874326-26280867	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1166 gene(s)	inside rSNPs	diseases
7	nsv1028456	chr6:25984457-26174993	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	873 gene(s)	inside rSNPs	diseases
8	nsv538165	chr6:25984457-26174993	Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	873 gene(s)	inside rSNPs	diseases
9	nsv428137	chr6:25987413-26351920	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1181 gene(s)	inside rSNPs	diseases
10	nsv916992	chr6:25991630-26280921	Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1159 gene(s)	inside rSNPs	diseases
11	nsv1028232	chr6:26005449-26319756	Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1171 gene(s)	inside rSNPs	diseases
12	nsv870314	chr6:26008435-26280807	Flanking Active TSS Enhancers Active TSS Genic enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1151 gene(s)	inside rSNPs	diseases
13	nsv1023457	chr6:26014014-26305407	Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1170 gene(s)	inside rSNPs	diseases
14	nsv1025493	chr6:26026870-26223838	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1001 gene(s)	inside rSNPs	diseases
15	nsv1023979	chr6:26026870-26287399	Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1113 gene(s)	inside rSNPs	diseases
16	nsv1015782	chr6:26026870-26323895	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1114 gene(s)	inside rSNPs	diseases
17	nsv1018665	chr6:26026870-26352046	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1116 gene(s)	inside rSNPs	diseases
18	nsv482348	chr6:26082709-26261136	Enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	799 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26104800-26122600	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr6:26105000-26122600	Weak transcription	Right Atrium	heart
3	chr6:26107600-26122800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr6:26108400-26121200	Weak transcription	Fetal Intestine Small	intestine
5	chr6:26110400-26122600	Weak transcription	Primary B cells from cord blood	blood
6	chr6:26114200-26121800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr6:26115600-26120600	Weak transcription	Small Intestine	intestine
8	chr6:26115800-26122400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr6:26115800-26122400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr6:26115800-26122600	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr6:26116000-26121200	Weak transcription	Stomach Mucosa	stomach
12	chr6:26116200-26121600	Weak transcription	Primary T cells from cord blood	blood
13	chr6:26116800-26121400	Weak transcription	Thymus	Thymus
14	chr6:26117600-26119600	Enhancers	Brain Hippocampus Middle	brain
15	chr6:26118000-26119800	Enhancers	Brain Substantia Nigra	brain
16	chr6:26118200-26119600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr6:26118600-26119600	Enhancers	A549	lung
18	chr6:26118800-26119600	Enhancers	iPS-15b Cell Line	embryonic stem cell
19	chr6:26118800-26119600	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr6:26118800-26119600	Enhancers	Dnd41	blood
21	chr6:26118800-26119600	Enhancers	NH-A	brain
22	chr6:26118800-26119800	Enhancers	Cortex derived primary cultured neurospheres	brain
23	chr6:26118800-26120800	Enhancers	HepG2	liver
24	chr6:26119000-26119600	Enhancers	ES-I3 Cell Line	embryonic stem cell
25	chr6:26119000-26119600	Active TSS	Brain Cingulate Gyrus	brain
26	chr6:26119000-26119600	Enhancers	Fetal Kidney	kidney
27	chr6:26119000-26119600	Active TSS	GM12878-XiMat	blood
28	chr6:26119000-26119800	Enhancers	HUES64 Cell Line	embryonic stem cell
29	chr6:26119000-26119800	Enhancers	Liver	Liver
30	chr6:26119200-26119600	Enhancers	H1 Cell Line	embryonic stem cell
31	chr6:26119200-26119600	Enhancers	HUES6 Cell Line	embryonic stem cell
32	chr6:26119200-26119600	Active TSS	Brain Anterior Caudate	brain
33	chr6:26119200-26119600	Flanking Active TSS	K562	blood
34	chr6:26119200-26119800	Enhancers	Fetal Thymus	thymus
35	chr6:26119200-26119800	Enhancers	HMEC	breast
36	chr6:26119400-26119600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr6:26119400-26119600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr6:26119400-26119600	Enhancers	HUES48 Cell Line	embryonic stem cell
39	chr6:26119400-26119600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr6:26119400-26119600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr6:26119400-26120400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr6:26119400-26122400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr6:26119400-26122600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr6:26119400-26122600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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