Variant report

Variant	rs7925604
Chromosome Location	chr11:71641256-71641257
allele	A/G
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	NFYB	chr11:71641184-71641601	GM12878	blood:	n/a	n/a
2	POLR2A	chr11:71641071-71641568	GM12892	blood:	n/a	n/a
3	ZNF263	chr11:71641095-71641651	HEK293-T-REx	kidney:	n/a	n/a
4	RELA	chr11:71641250-71642946	GM12891	blood:	n/a	chr11:71642387-71642396 chr11:71642387-71642396
5	SREBP1	chr11:71638618-71641652	GM12878	blood:	n/a	chr11:71638818-71638829
6	IKZF1	chr11:71641194-71641930	GM12878	blood:	n/a	n/a
7	POLR2A	chr11:71641054-71641896	GM12892	blood:	n/a	n/a
8	POLR2A	chr11:71641044-71641617	GM12891	blood:	n/a	n/a
9	NFIC	chr11:71640963-71642934	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr11:71638377..71641678-chr11:71642670..71653439,17	MCF-7	breast:
2	chr11:71641143..71643109-chr11:71654078..71656466,2	MCF-7	breast:
3	chr11:71641032..71643202-chr11:71658397..71660024,2	MCF-7	breast:
4	chr11:71637612..71641494-chr11:71650147..71652866,4	K562	blood:

Variant related genes	Relation type
ENSG00000254469	TF binding region
ENSG00000255296	Chromatin interaction

Extended variants
information (count: 123 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:119)

rs_ID	r²[population]
rs10128658	0.87[CEU][hapmap];0.82[YRI][hapmap]
rs10450664	0.86[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap]
rs10501408	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1055452	1.00[CEU][hapmap];0.80[CHB][hapmap];0.93[JPT][hapmap];0.88[YRI][hapmap]
rs1057992	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap]
rs10736783	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs10751189	0.86[CEU][hapmap]
rs10751191	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs10793011	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10793016	0.87[CEU][hapmap]
rs11235440	0.87[CEU][hapmap]
rs11235441	1.00[CEU][hapmap];0.84[CHB][hapmap];0.93[JPT][hapmap];0.94[YRI][hapmap]
rs12272213	0.87[CEU][hapmap];0.85[JPT][hapmap]
rs12275171	1.00[CEU][hapmap];0.88[CHB][hapmap];0.88[JPT][hapmap];0.91[YRI][hapmap]
rs12293885	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs1541304	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1541306	0.87[CEU][hapmap]
rs1548348	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs1573501	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap]
rs1573502	0.87[CEU][hapmap]
rs17161966	0.87[CEU][hapmap]
rs17161980	0.87[CEU][hapmap]
rs1892920	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs1892921	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs1894004	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs1939242	0.87[CEU][hapmap]
rs1939243	0.87[CEU][hapmap]
rs1939247	0.87[CEU][hapmap];0.81[JPT][hapmap];0.82[YRI][hapmap]
rs2155142	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2155145	0.87[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap]
rs2187496	0.86[CEU][hapmap];0.93[JPT][hapmap]
rs2250866	0.86[CEU][hapmap]
rs2276384	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2298456	0.87[CEU][hapmap]
rs2298457	0.87[CEU][hapmap];0.82[YRI][hapmap]
rs2503	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap]
rs2508856	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs2511079	0.87[CEU][hapmap]
rs2511114	0.87[CEU][hapmap]
rs2885880	0.85[JPT][hapmap]
rs3018301	0.87[CEU][hapmap]
rs3018302	0.87[CEU][hapmap]
rs3018310	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs3750908	0.87[CEU][hapmap]
rs3793938	0.87[CEU][hapmap]
rs3814721	0.87[CEU][hapmap]
rs3829215	1.00[CHB][hapmap]
rs4121395	0.87[CEU][hapmap];0.82[YRI][hapmap]
rs4338555	0.86[CEU][hapmap]
rs4387373	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs4477459	0.87[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs493065	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs4943821	0.87[CEU][hapmap]
rs4944232	0.87[CEU][hapmap];0.88[YRI][hapmap]
rs4944242	0.87[CEU][hapmap];0.82[YRI][hapmap]
rs4944243	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs4945378	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs4945392	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4945426	0.87[CEU][hapmap]
rs4945434	0.87[CEU][hapmap]
rs497761	1.00[CEU][hapmap];0.86[JPT][hapmap]
rs510925	1.00[CEU][hapmap];0.93[JPT][hapmap]
rs541022	0.87[CEU][hapmap]
rs542097	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap]
rs552966	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs560777	0.87[CEU][hapmap]
rs567026	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs575831	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap]
rs575871	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs577435	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs579320	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs585228	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs595062	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs607446	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs610004	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs610041	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs612255	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs615000	0.81[JPT][hapmap]
rs642573	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs642618	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs6592447	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6592448	0.87[CEU][hapmap];0.82[YRI][hapmap]
rs6592449	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs6592450	0.87[CEU][hapmap]
rs6592451	1.00[CEU][hapmap];0.82[YRI][hapmap]
rs6592453	0.87[CEU][hapmap];0.82[YRI][hapmap]
rs6592455	0.87[CEU][hapmap];0.82[YRI][hapmap]
rs6592456	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs6592457	1.00[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap]
rs659513	0.87[CEU][hapmap]
rs661290	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs671681	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs673478	0.87[CEU][hapmap]
rs674735	0.87[CEU][hapmap]
rs679926	0.87[CEU][hapmap]
rs686340	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap]
rs7102192	0.86[CEU][hapmap]
rs7103210	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs7106730	1.00[CEU][hapmap];0.80[CHB][hapmap];0.93[JPT][hapmap]
rs7111379	1.00[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.94[YRI][hapmap]
rs7113436	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7113549	0.87[CEU][hapmap]
rs7115513	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7121080	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs7121260	0.87[CEU][hapmap]
rs7123992	0.82[CEU][hapmap];0.81[JPT][hapmap]
rs7126394	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs7127865	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs7128317	0.87[CEU][hapmap];0.82[YRI][hapmap]
rs7128974	0.87[CEU][hapmap];0.82[YRI][hapmap]
rs7924834	1.00[CEU][hapmap];0.85[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap]
rs7925411	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7930142	0.92[YRI][hapmap]
rs7930544	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs7931941	0.87[CEU][hapmap]
rs7948821	0.87[CEU][hapmap];0.82[YRI][hapmap]
rs947932	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs949323	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap]
rs949326	1.00[CEU][hapmap];0.84[CHB][hapmap];0.92[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530623	chr11:71088949-72020418	Enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	134 gene(s)	inside rSNPs	diseases
2	esv2758276	chr11:71363639-71657576	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	esv2759836	chr11:71363639-71657576	Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
4	nsv428262	chr11:71363639-71804055	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:71638600-71641400	Active TSS	Fetal Intestine Small	intestine
2	chr11:71638600-71641600	Active TSS	HUES6 Cell Line	embryonic stem cell
3	chr11:71638600-71641600	Active TSS	HUES64 Cell Line	embryonic stem cell
4	chr11:71638800-71641400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr11:71638800-71641600	Active TSS	H1 Cell Line	embryonic stem cell
6	chr11:71638800-71641600	Active TSS	A549	lung
7	chr11:71638800-71641600	Active TSS	HSMMtube	muscle
8	chr11:71638800-71642200	Active TSS	GM12878-XiMat	blood
9	chr11:71639000-71641800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
10	chr11:71639200-71641800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr11:71640200-71641600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr11:71640200-71641600	Flanking Active TSS	Adipose Nuclei	Adipose
13	chr11:71640400-71641400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
14	chr11:71640400-71641400	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
15	chr11:71640400-71641400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr11:71640400-71641600	Flanking Active TSS	Liver	Liver
17	chr11:71640400-71641600	Flanking Active TSS	Duodenum Mucosa	Duodenum
18	chr11:71640400-71641600	Flanking Active TSS	Rectal Smooth Muscle	rectum
19	chr11:71640600-71641400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
20	chr11:71640600-71641400	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr11:71640600-71641400	Flanking Active TSS	Brain Angular Gyrus	brain
22	chr11:71640600-71641400	Flanking Active TSS	Brain Hippocampus Middle	brain
23	chr11:71640600-71641400	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
24	chr11:71640600-71641400	Flanking Active TSS	Colon Smooth Muscle	Colon
25	chr11:71640600-71641400	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
26	chr11:71640600-71641400	Flanking Active TSS	Fetal Brain Male	brain
27	chr11:71640600-71641400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
28	chr11:71640600-71641400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
29	chr11:71640600-71641600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
30	chr11:71640600-71641600	Flanking Active TSS	Brain Germinal Matrix	brain
31	chr11:71640600-71641600	Flanking Active TSS	Fetal Brain Female	brain
32	chr11:71640600-71641600	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
33	chr11:71640600-71641600	Enhancers	Small Intestine	intestine
34	chr11:71640600-71641600	Flanking Active TSS	Stomach Smooth Muscle	stomach
35	chr11:71640600-71641600	Enhancers	Spleen	Spleen
36	chr11:71640600-71641800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr11:71640600-71641800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr11:71640600-71641800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr11:71640600-71641800	Flanking Active TSS	Dnd41	blood
40	chr11:71640600-71641800	Flanking Active TSS	Hela-S3	cervix
41	chr11:71640600-71642400	Flanking Active TSS	Osteobl	bone
42	chr11:71640600-71643600	Flanking Active TSS	HUVEC	blood vessel
43	chr11:71640800-71641400	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
44	chr11:71640800-71641400	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
45	chr11:71640800-71641400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr11:71640800-71641400	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
47	chr11:71640800-71641400	Enhancers	Primary monocytes fromperipheralblood	blood
48	chr11:71640800-71641400	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr11:71640800-71641400	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr11:71640800-71641400	Flanking Active TSS	Fetal Heart	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links