Variant report

Variant	rs3850936
Chromosome Location	chr11:8833026-8833027
allele	G/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	POLR2A	chr11:8832993-8833067	ProgFib	skin:	n/a	n/a
2	POLR2A	chr11:8832700-8833057	HepG2	liver:	n/a	n/a
3	MXI1	chr11:8831500-8833336	IMR90	lung:	n/a	chr11:8832250-8832265 chr11:8832248-8832263

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:8707539..8711325-chr11:8831652..8835543,5	MCF-7	breast:
2	chr11:8717868..8722426-chr11:8832973..8835335,4	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TRIM66-7	chr11:8832964-8833127	NONHSAT017885

Variant related genes	Relation type
ST5	TF binding region
ENSG00000166444	Chromatin interaction
ENSG00000166441	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs3850935	0.87[AFR][1000 genomes]
rs3862353	0.92[AFR][1000 genomes]
rs4929917	0.86[AFR][1000 genomes]
rs6484547	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7121160	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7950108	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]

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	esv2758256	chr11:8784813-9009573	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	esv2759803	chr11:8784813-9009573	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv527920	chr11:8816695-8856822	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv527073	chr11:8829168-8848463	Flanking Active TSS Active TSS Genic enhancers Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:8828800-8833200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr11:8831800-8833200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr11:8831800-8833200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
4	chr11:8832000-8833200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr11:8832200-8833200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr11:8832200-8833200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr11:8832200-8833200	Flanking Active TSS	Stomach Smooth Muscle	stomach
8	chr11:8832200-8833200	Flanking Active TSS	HMEC	breast
9	chr11:8832200-8833200	Flanking Active TSS	HSMMtube	muscle
10	chr11:8832200-8835000	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr11:8832400-8833200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr11:8832400-8833200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
13	chr11:8832400-8833200	Flanking Active TSS	Brain Hippocampus Middle	brain
14	chr11:8832400-8833200	Enhancers	Lung	lung
15	chr11:8832400-8833200	Flanking Active TSS	Rectal Smooth Muscle	rectum
16	chr11:8832400-8834600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr11:8832400-8835000	Weak transcription	HUVEC	blood vessel
18	chr11:8832400-8836800	Enhancers	Placenta Amnion	Placenta Amnion
19	chr11:8832600-8833200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr11:8832600-8833200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr11:8832600-8833200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr11:8832600-8833200	Enhancers	Liver	Liver
23	chr11:8832600-8833200	Flanking Active TSS	Brain Anterior Caudate	brain
24	chr11:8832600-8833200	Flanking Active TSS	Brain Cingulate Gyrus	brain
25	chr11:8832600-8833200	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
26	chr11:8832600-8833200	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
27	chr11:8832600-8833200	Enhancers	Fetal Brain Male	brain
28	chr11:8832600-8833200	Enhancers	Fetal Thymus	thymus
29	chr11:8832600-8833200	Enhancers	Pancreas	Pancrea
30	chr11:8832600-8833200	Flanking Active TSS	HSMM	muscle
31	chr11:8832600-8833200	Flanking Active TSS	NHEK	skin
32	chr11:8832600-8833200	Flanking Active TSS	Osteobl	bone
33	chr11:8832600-8833600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr11:8832600-8833800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr11:8832600-8834200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
36	chr11:8832600-8834600	Enhancers	Primary neutrophils fromperipheralblood	blood
37	chr11:8832600-8835000	Weak transcription	Primary hematopoietic stem cells	blood
38	chr11:8832600-8835200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr11:8832600-8840800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr11:8832800-8833200	Enhancers	H1 Cell Line	embryonic stem cell
41	chr11:8832800-8833200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr11:8832800-8833200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr11:8832800-8833200	Enhancers	HUES48 Cell Line	embryonic stem cell
44	chr11:8832800-8833200	Enhancers	iPS-18 Cell Line	embryonic stem cell
45	chr11:8832800-8833200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
46	chr11:8832800-8833200	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
47	chr11:8832800-8833200	Enhancers	Fetal Intestine Small	intestine
48	chr11:8832800-8833200	Enhancers	Placenta	Placenta
49	chr11:8832800-8833200	Active TSS	Rectal Mucosa Donor 29	rectum
50	chr11:8832800-8833200	Flanking Active TSS	HepG2	liver

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