Variant report

Variant	rs35235415
Chromosome Location	chr11:66620121-66620122
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	POLR2A	chr11:66620068-66620392	H1-neurons	neurons:	n/a	n/a
2	CTCF	chr11:66619382-66620255	HCT-116	colon:	n/a	chr11:66620161-66620169 chr11:66620158-66620176
3	CTCF	chr11:66619391-66620138	A549	lung:	n/a	n/a
4	CTCF	chr11:66619980-66620130	A549	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:66619709..66620228-chr11:66636261..66636823,2	MCF-7	breast:
2	chr11:66619627..66620428-chr11:66743030..66743951,3	MCF-7	breast:

Variant related genes	Relation type
LRFN4	TF binding region
PC	TF binding region

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

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11227604	1.00[LWK][hapmap]
rs11600012	1.00[CHD][hapmap]
rs11820976	1.00[CHD][hapmap]
rs3891724	1.00[CHD][hapmap];1.00[LWK][hapmap]
rs471334	1.00[CHD][hapmap];1.00[LWK][hapmap]
rs7116351	1.00[LWK][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv897789	chr11:66372390-66634397	Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
2	nsv897790	chr11:66414915-66626234	Transcr. at gene 5' and 3' Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
3	nsv468602	chr11:66468469-66634397	Enhancers Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
4	nsv555225	chr11:66468469-66634397	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
5	nsv508638	chr11:66541653-66643634	Strong transcription Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
6	nsv897794	chr11:66579572-66744119	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
7	nsv555226	chr11:66579572-66845362	Active TSS Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
8	nsv897795	chr11:66608521-66637926	Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	49 gene(s)	inside rSNPs	diseases
9	nsv428574	chr11:66619002-66804133	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:66612000-66623000	Weak transcription	Psoas Muscle	Psoas
2	chr11:66612000-66623200	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr11:66612000-66623200	Weak transcription	Right Atrium	heart
4	chr11:66612200-66623000	Weak transcription	Fetal Kidney	kidney
5	chr11:66612200-66623000	Weak transcription	Stomach Mucosa	stomach
6	chr11:66612200-66623000	Weak transcription	HSMM	muscle
7	chr11:66612200-66623200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr11:66612200-66623200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr11:66612400-66623200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr11:66612400-66623200	Weak transcription	NH-A	brain
11	chr11:66612600-66620200	Strong transcription	Fetal Intestine Small	intestine
12	chr11:66612600-66620400	Strong transcription	Brain Anterior Caudate	brain
13	chr11:66612600-66620800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr11:66612800-66620200	Strong transcription	Brain Hippocampus Middle	brain
15	chr11:66612800-66620200	Strong transcription	Brain Inferior Temporal Lobe	brain
16	chr11:66612800-66620400	Strong transcription	Gastric	stomach
17	chr11:66612800-66620600	Strong transcription	Brain Cingulate Gyrus	brain
18	chr11:66612800-66620800	Strong transcription	Liver	Liver
19	chr11:66612800-66623200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr11:66613000-66620400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr11:66613000-66620400	Strong transcription	Fetal Brain Female	brain
22	chr11:66613200-66620200	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr11:66613200-66622400	Weak transcription	Fetal Brain Male	brain
24	chr11:66613400-66620400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr11:66613400-66623000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr11:66613800-66620600	Strong transcription	Fetal Stomach	stomach
27	chr11:66614200-66620200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr11:66614200-66622400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr11:66614400-66623000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr11:66614400-66623000	Weak transcription	Osteobl	bone
31	chr11:66614600-66622800	Weak transcription	Fetal Lung	lung
32	chr11:66614600-66623000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr11:66614600-66623000	Weak transcription	HUVEC	blood vessel
34	chr11:66614800-66622000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr11:66615200-66622000	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr11:66615200-66623000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr11:66615400-66623000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr11:66615400-66623000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr11:66615400-66623000	Weak transcription	Rectal Smooth Muscle	rectum
40	chr11:66615600-66621800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
41	chr11:66615600-66622800	Weak transcription	Primary neutrophils fromperipheralblood	blood
42	chr11:66615600-66623000	Weak transcription	H9 Cell Line	embryonic stem cell
43	chr11:66615600-66623200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr11:66615800-66622400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr11:66615800-66622800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr11:66615800-66622800	Weak transcription	Primary hematopoietic stem cells	blood
47	chr11:66615800-66622800	Weak transcription	Left Ventricle	heart
48	chr11:66615800-66623000	Weak transcription	H1 Cell Line	embryonic stem cell
49	chr11:66616000-66623000	Weak transcription	HUES64 Cell Line	embryonic stem cell
50	chr11:66616000-66623000	Weak transcription	Primary T cells fromperipheralblood	blood

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