Variant report

Variant	rs573864
Chromosome Location	chr11:65147862-65147863
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:5)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:5 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SIN3AK20	chr11:65147201-65147940	MCF-7	breast:	n/a	n/a
2	GATA3	chr11:65147252-65147889	MCF-7	breast:	n/a	n/a
3	NR2F2	chr11:65147206-65147918	MCF-7	breast:	n/a	n/a
4	MAX	chr11:65147264-65147959	MCF-7	breast:	n/a	chr11:65147806-65147816
5	HDAC2	chr11:65147291-65147875	MCF-7	breast:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:65147535..65148091-chr11:65186090..65186757,2	MCF-7	breast:
2	chr11:65145713..65148511-chr11:65656640..65659365,2	MCF-7	breast:
3	chr11:65147131..65148138-chr11:65185981..65186782,7	MCF-7	breast:
4	chr11:65116402..65157784-chr11:65261420..65278410,154	K562	blood:
5	chr11:65098911..65102850-chr11:65147012..65151675,4	MCF-7	breast:
6	chr11:65147249..65148062-chr11:65185872..65186473,2	MCF-7	breast:

No data

Variant related genes	Relation type
SLC25A45	TF binding region
ENSG00000175602	Chromatin interaction
ENSG00000133884	Chromatin interaction
ENSG00000270117	Chromatin interaction
ENSG00000251562	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11602839	0.86[CHB][hapmap]
rs1205739	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2073801	0.90[CHB][hapmap]
rs2239895	0.92[EUR][1000 genomes]
rs2307264	1.00[CEU][hapmap]
rs2904976	0.90[CHB][hapmap]
rs3741384	0.90[CHB][hapmap];0.83[JPT][hapmap];0.84[EUR][1000 genomes]
rs666834	0.90[CHB][hapmap];0.84[JPT][hapmap]
rs680413	0.90[CHB][hapmap];0.83[JPT][hapmap];1.00[EUR][1000 genomes]
rs7925823	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 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	esv2422285	chr11:65013294-65254540	Genic enhancers Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	474 gene(s)	inside rSNPs	diseases
3	nsv897715	chr11:65083491-65427346	Enhancers Genic enhancers Active TSS Weak transcription Strong transcription Flanking 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	984 gene(s)	inside rSNPs	diseases
4	nsv897716	chr11:65083491-65481166	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	999 gene(s)	inside rSNPs	diseases
5	nsv541065	chr11:65117387-65271894	Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	835 gene(s)	inside rSNPs	diseases
6	esv1829999	chr11:65136686-65343124	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers 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	963 gene(s)	inside rSNPs	diseases
7	nsv897717	chr11:65140209-65278461	Strong transcription Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	942 gene(s)	inside rSNPs	diseases
8	nsv897718	chr11:65140209-65577516	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1003 gene(s)	inside rSNPs	diseases
9	nsv541066	chr11:65142779-65271894	Active TSS Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	833 gene(s)	inside rSNPs	diseases
10	nsv541067	chr11:65142779-65313799	Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	950 gene(s)	inside rSNPs	diseases
11	nsv541068	chr11:65142779-65331136	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	953 gene(s)	inside rSNPs	diseases
12	nsv541069	chr11:65142779-65368787	Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	965 gene(s)	inside rSNPs	diseases
13	nsv541070	chr11:65142779-65397058	Flanking Active TSS Active TSS Enhancers Genic enhancers Bivalent Enhancer Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	972 gene(s)	inside rSNPs	diseases
14	nsv541071	chr11:65142779-65429352	Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	984 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:65134200-65149200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr11:65134400-65149400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr11:65138800-65149400	Weak transcription	Aorta	Aorta
4	chr11:65139200-65148200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr11:65139400-65148400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr11:65140000-65148400	Weak transcription	K562	blood
7	chr11:65140000-65149200	Weak transcription	HSMM	muscle
8	chr11:65140400-65149200	Weak transcription	Right Atrium	heart
9	chr11:65141000-65149200	Weak transcription	Brain Cingulate Gyrus	brain
10	chr11:65141600-65148400	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr11:65142000-65148200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr11:65142000-65148200	Weak transcription	Left Ventricle	heart
13	chr11:65142200-65148200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr11:65142600-65148000	Strong transcription	Primary T cells from cord blood	blood
15	chr11:65143000-65148200	Weak transcription	HMEC	breast
16	chr11:65143000-65148400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr11:65143200-65148200	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr11:65144000-65148000	Genic enhancers	Primary B cells from peripheral blood	blood
19	chr11:65144200-65148200	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr11:65144200-65148200	Strong transcription	Thymus	Thymus
21	chr11:65144200-65149200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr11:65144800-65149200	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr11:65145200-65148400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr11:65145400-65148200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr11:65145600-65149200	Weak transcription	Fetal Stomach	stomach
26	chr11:65145800-65148400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr11:65145800-65148400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr11:65145800-65148600	Enhancers	A549	lung
29	chr11:65145800-65149200	Weak transcription	Brain Substantia Nigra	brain
30	chr11:65146000-65148400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr11:65146200-65148000	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr11:65146200-65148400	Genic enhancers	Primary T cells fromperipheralblood	blood
33	chr11:65146200-65150800	Enhancers	Gastric	stomach
34	chr11:65146400-65148200	Weak transcription	Placenta	Placenta
35	chr11:65146400-65148400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr11:65146400-65148600	Weak transcription	Adipose Nuclei	Adipose
37	chr11:65146400-65148800	Weak transcription	Primary B cells from cord blood	blood
38	chr11:65146400-65149200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr11:65146400-65149200	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr11:65146600-65148400	Enhancers	HepG2	liver
41	chr11:65146600-65148600	Weak transcription	Fetal Kidney	kidney
42	chr11:65146800-65148200	Weak transcription	Stomach Smooth Muscle	stomach
43	chr11:65146800-65148400	Weak transcription	Primary monocytes fromperipheralblood	blood
44	chr11:65146800-65148400	Genic enhancers	GM12878-XiMat	blood
45	chr11:65146800-65148400	Weak transcription	Monocytes-CD14+_RO01746	blood
46	chr11:65146800-65149400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr11:65146800-65149400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr11:65147200-65148000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr11:65147200-65148400	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
50	chr11:65147200-65148600	Enhancers	Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links