Variant report

Variant	rs11556920
Chromosome Location	chr11:64884663-64884664
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:231)
CpG islands
(count:0)
Chromatin interactive
region (count:40)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:231 , 50 per page) page: 1 2 3 4 5

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MAX	chr11:64884012-64885667	HepG2	liver:	n/a	chr11:64885269-64885278
2	UBTF	chr11:64884318-64885503	K562	blood:	n/a	n/a
3	POLR2A	chr11:64884555-64885580	HepG2	liver:	n/a	n/a
4	E2F6	chr11:64883750-64885555	H1-hESC	embryonic stem cell:	n/a	n/a
5	CHD1	chr11:64884547-64885140	H1-hESC	embryonic stem cell:	n/a	n/a
6	JUN	chr11:64884129-64885655	K562	blood:	n/a	chr11:64885359-64885372
7	POLR2A	chr11:64884048-64885688	HUVEC	blood vessel:	n/a	n/a
8	ELF1	chr11:64883998-64885513	GM12878	blood:	n/a	chr11:64885175-64885188 chr11:64885176-64885187 chr11:64885196-64885209 chr11:64885198-64885207 chr11:64885177-64885186 chr11:64885197-64885208
9	EP300	chr11:64884649-64885634	ECC-1	luminal epithelium:	n/a	chr11:64885198-64885205 chr11:64885177-64885184
10	POLR2A	chr11:64884197-64885566	GM15510	blood:	n/a	n/a
11	ELF1	chr11:64884032-64885673	MCF-7	breast:	n/a	chr11:64885175-64885188 chr11:64885176-64885187 chr11:64885196-64885209 chr11:64885198-64885207 chr11:64885177-64885186 chr11:64885197-64885208
12	STAT5A	chr11:64884084-64885777	GM12878	blood:	n/a	chr11:64884981-64885005
13	FOXM1	chr11:64884554-64885706	GM12878	blood:	n/a	n/a
14	POLR2A	chr11:64884063-64885547	K562	blood:	n/a	n/a
15	SIN3AK20	chr11:64884226-64885522	SK-N-SH	brain:	n/a	n/a
16	POLR2A	chr11:64881621-64885776	GM12891	blood:	n/a	n/a
17	CTCF	chr11:64884623-64886178	SK-N-SH	brain:	n/a	chr11:64885413-64885431 chr11:64885414-64885430 chr11:64885408-64885429 chr11:64885419-64885428
18	POU2F2	chr11:64884199-64885634	GM12891	blood:	n/a	n/a
19	FOXP2	chr11:64884638-64885574	PFSK-1	brain:	n/a	n/a
20	POLR2A	chr11:64879949-64886482	MCF10A-Er-Src	breast:	n/a	n/a
21	POLR2A	chr11:64884208-64885660	GM12878	blood:	n/a	n/a
22	POLR2A	chr11:64884337-64884707	U87	brain:	n/a	n/a
23	TCF12	chr11:64883940-64885757	A549	lung:	n/a	n/a
24	PBX3	chr11:64884110-64885795	SK-N-SH	brain:	n/a	n/a
25	ZBTB33	chr11:64884425-64885645	SK-N-SH	brain:	n/a	n/a
26	YY1	chr11:64884549-64885565	SK-N-SH_RA	brain:	n/a	n/a
27	RELA	chr11:64884436-64885597	GM18951	blood:	n/a	n/a
28	POLR2A	chr11:64884511-64885655	NB4	blood:	n/a	n/a
29	CEBPD	chr11:64884301-64885608	HepG2	liver:	n/a	n/a
30	POLR2A	chr11:64881694-64890247	PFSK-1	brain:	n/a	n/a
31	YY1	chr11:64884515-64885594	GM12878	blood:	n/a	n/a
32	POLR2A	chr11:64878789-64886874	H1-hESC	embryonic stem cell:	n/a	n/a
33	NR2F2	chr11:64884601-64885650	K562	blood:	n/a	n/a
34	TCF12	chr11:64884632-64885581	ECC-1	luminal epithelium:	n/a	n/a
35	MAX	chr11:64883888-64885627	K562	blood:	n/a	chr11:64885269-64885278
36	POLR2A	chr11:64883960-64885608	MCF-7	breast:	n/a	n/a
37	POLR2A	chr11:64881996-64885883	H1-hESC	embryonic stem cell:	n/a	n/a
38	POLR2A	chr11:64884117-64885549	HEK293	kidney:	n/a	n/a
39	POLR2A	chr11:64883876-64885549	A549	lung:	n/a	n/a
40	POLR2A	chr11:64883534-64886531	PANC-1	pancreas:	n/a	n/a
41	JUND	chr11:64884320-64885643	A549	lung:	n/a	n/a
42	POLR2A	chr11:64882063-64885673	IMR90	lung:	n/a	n/a
43	HCFC1	chr11:64882807-64885682	Hela-S3	cervix:	n/a	n/a
44	MXI1	chr11:64883672-64885798	SK-N-SH	brain:	n/a	n/a
45	PAX5	chr11:64884046-64885448	GM12892	blood:	n/a	n/a
46	POLR2A	chr11:64878686-64885755	GM12891	blood:	n/a	n/a
47	HDAC2	chr11:64884144-64885360	MCF-7	breast:	n/a	n/a
48	POLR2A	chr11:64882084-64885696	GM12878	blood:	n/a	n/a
49	HEY1	chr11:64884283-64885675	K562	blood:	n/a	chr11:64885212-64885227
50	USF2	chr11:64883556-64885660	Hela-S3	cervix:	n/a	chr11:64885212-64885228

No data

(count:40 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:64883300..64885236-chr11:64972448..64974242,2	K562	blood:
2	chr11:64536552..64539187-chr11:64882695..64885248,2	MCF-7	breast:
3	chr11:64787248..64789903-chr11:64884461..64886081,2	MCF-7	breast:
4	chr11:64779861..64784378-chr11:64881512..64885598,8	MCF-7	breast:
5	chr11:64544471..64546951-chr11:64883207..64885206,3	K562	blood:
6	chr11:64778393..64787449-chr11:64877655..64886980,25	K562	blood:
7	chr11:64569309..64573413-chr11:64882963..64885967,3	K562	blood:
8	chr11:64884104..64886722-chr11:65028926..65030544,2	MCF-7	breast:
9	chr11:64654425..64656235-chr11:64883004..64885352,2	K562	blood:
10	chr11:64568159..64573413-chr11:64882450..64885409,5	K562	blood:
11	chr11:64884264..64885235-chrX:47004398..47004945,2	Hela-S3	cervix:
12	chr11:64544278..64548048-chr11:64882517..64885401,5	K562	blood:
13	chr11:64609572..64613469-chr11:64883335..64886835,8	MCF-7	breast:
14	chr11:64553028..64555577-chr11:64882403..64884702,2	MCF-7	breast:
15	chr11:64862526..64865749-chr11:64882167..64886670,6	K562	blood:
16	chr11:64884402..64886500-chr12:56223721..56226196,2	MCF-7	breast:
17	chr11:64642261..64647543-chr11:64882719..64886329,5	MCF-7	breast:
18	chr11:64806922..64809393-chr11:64883452..64886674,3	MCF-7	breast:
19	chr11:64643589..64645871-chr11:64883152..64885290,3	K562	blood:
20	chr11:64880606..64886969-chr11:64935331..64942091,20	K562	blood:
21	chr11:64877702..64891058-chr11:64944203..64957091,32	K562	blood:
22	chr11:64643590..64647956-chr11:64883297..64887661,6	MCF-7	breast:
23	chr11:64875868..64888016-chr11:64945810..64953962,46	MCF-7	breast:
24	chr11:64610442..64614915-chr11:64882306..64888577,8	K562	blood:
25	chr11:64778507..64787901-chr11:64877920..64890097,31	K562	blood:
26	chr11:64772580..64786543-chr11:64875055..64887722,37	MCF-7	breast:
27	chr11:64878261..64886969-chr11:64935331..64941944,21	K562	blood:
28	chr11:64877522..64908330-chr11:64931619..64960265,171	MCF-7	breast:
29	chr11:62607346..62609197-chr11:64882535..64884835,2	MCF-7	breast:
30	chr11:64884386..64886553-chr6:30687642..30689654,2	MCF-7	breast:
31	chr11:64882968..64888833-chr11:64945101..64949501,11	K562	blood:
32	chr11:64883613..64891269-chr11:65027573..65033885,11	K562	blood:
33	chr11:64849686..64855071-chr11:64883547..64886732,9	MCF-7	breast:
34	chr11:64569285..64571691-chr11:64884123..64886254,2	MCF-7	breast:
35	chr11:64883520..64885092-chr15:69744413..69746307,2	MCF-7	breast:
36	chr11:64606648..64614730-chr11:64876453..64886748,20	MCF-7	breast:
37	chr11:64611161..64616461-chr11:64883590..64887057,5	K562	blood:
38	chr11:64884257..64886940-chr11:64972599..64976618,4	MCF-7	breast:
39	chr11:64883484..64885408-chr6:30582873..30584863,2	MCF-7	breast:
40	chr11:64883635..64887153-chr11:65027849..65031198,3	MCF-7	breast:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TM7SF2-1	chr11:64884629-64884716	ENSG00000255173.1

No data

Variant related genes	Relation type
MRPL49	TF binding region
ENSG00000196230	Chromatin interaction
ENSG00000171219	Chromatin interaction
ENSG00000168061	Chromatin interaction
ENSG00000273003	Chromatin interaction
ENSG00000269290	Chromatin interaction
ENSG00000168067	Chromatin interaction
ENSG00000213465	Chromatin interaction
ENSG00000149823	Chromatin interaction
ENSG00000249251	Chromatin interaction
ENSG00000269038	Chromatin interaction
ENSG00000182872	Chromatin interaction
ENSG00000147123	Chromatin interaction
ENSG00000110047	Chromatin interaction
ENSG00000014138	Chromatin interaction
ENSG00000133316	Chromatin interaction
ENSG00000135392	Chromatin interaction
ENSG00000168066	Chromatin interaction
ENSG00000146670	Chromatin interaction
ENSG00000137818	Chromatin interaction
ENSG00000182796	Chromatin interaction
ENSG00000014216	Chromatin interaction
ENSG00000254614	Chromatin interaction
ENSG00000255200	Chromatin interaction
ENSG00000204710	Chromatin interaction
ENSG00000162300	Chromatin interaction
ENSG00000222894	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1046912	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10895987	0.84[CHD][hapmap]
rs11604099	0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11604621	1.00[AFR][1000 genomes]
rs11604798	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[ASN][1000 genomes]
rs12420097	1.00[MKK][hapmap]
rs17883283	1.00[MEX][hapmap]
rs17884773	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs33981236	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35251366	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs769442	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[ASN][1000 genomes]
rs9971407	0.84[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv526181	chr11:64638041-65257329	Flanking Active TSS Enhancers Strong transcription Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1539 gene(s)	inside rSNPs	diseases
2	nsv897710	chr11:64772545-64885445	Flanking Active TSS Strong transcription Genic enhancers Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	99 gene(s)	inside rSNPs	diseases
3	nsv897711	chr11:64772545-64900270	Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	109 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:64882200-64886600	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr11:64883400-64884800	Enhancers	Fetal Heart	heart
3	chr11:64883400-64885600	Transcr. at gene 5' and 3'	Skeletal Muscle Male	skeletal muscle
4	chr11:64883600-64885200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
5	chr11:64883800-64885200	Active TSS	iPS-15b Cell Line	embryonic stem cell
6	chr11:64883800-64885200	Flanking Active TSS	Primary hematopoietic stem cells	blood
7	chr11:64883800-64885200	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
8	chr11:64883800-64885200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr11:64883800-64885200	Active TSS	Pancreatic Islets	Pancreatic Islet
10	chr11:64883800-64885200	Active TSS	Psoas Muscle	Psoas
11	chr11:64883800-64885400	Transcr. at gene 5' and 3'	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr11:64883800-64885600	Active TSS	HUES48 Cell Line	embryonic stem cell
13	chr11:64884000-64884800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr11:64884000-64884800	Flanking Active TSS	Liver	Liver
15	chr11:64884000-64884800	Flanking Active TSS	Duodenum Mucosa	Duodenum
16	chr11:64884000-64884800	Flanking Active TSS	Spleen	Spleen
17	chr11:64884000-64885000	Transcr. at gene 5' and 3'	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr11:64884000-64885000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr11:64884000-64885000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
20	chr11:64884000-64885000	Flanking Active TSS	Adipose Nuclei	Adipose
21	chr11:64884000-64885000	Flanking Active TSS	Stomach Smooth Muscle	stomach
22	chr11:64884000-64885200	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr11:64884000-64885200	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr11:64884000-64885200	Flanking Active TSS	Primary T cells fromperipheralblood	blood
25	chr11:64884000-64885200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
26	chr11:64884000-64885200	Flanking Active TSS	Colonic Mucosa	Colon
27	chr11:64884000-64885400	Active TSS	iPS-20b Cell Line	embryonic stem cell
28	chr11:64884000-64885400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
29	chr11:64884000-64885400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
30	chr11:64884000-64885600	Active TSS	H9 Cell Line	embryonic stem cell
31	chr11:64884000-64885600	Active TSS	HUES6 Cell Line	embryonic stem cell
32	chr11:64884200-64884800	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
33	chr11:64884200-64884800	Flanking Active TSS	Primary B cells from peripheral blood	blood
34	chr11:64884200-64884800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
35	chr11:64884200-64884800	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
36	chr11:64884200-64884800	Flanking Active TSS	Brain Germinal Matrix	brain
37	chr11:64884200-64884800	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
38	chr11:64884200-64884800	Flanking Active TSS	Fetal Muscle Trunk	muscle
39	chr11:64884200-64884800	Flanking Active TSS	Fetal Muscle Leg	muscle
40	chr11:64884200-64884800	Flanking Active TSS	Placenta Amnion	Placenta Amnion
41	chr11:64884200-64884800	Flanking Active TSS	NH-A	brain
42	chr11:64884200-64885000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
43	chr11:64884200-64885200	Active TSS	ES-I3 Cell Line	embryonic stem cell
44	chr11:64884200-64885200	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
45	chr11:64884200-64885200	Active TSS	iPS-18 Cell Line	embryonic stem cell
46	chr11:64884200-64885200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr11:64884200-64885200	Active TSS	Primary T cells from cord blood	blood
48	chr11:64884200-64885200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr11:64884200-64885200	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
50	chr11:64884200-64885200	Active TSS	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links