Variant report

Variant	rs11258406
Chromosome Location	chr10:6425111-6425112
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:6242967..6246327-chr10:6423283..6428365,4	MCF-7	breast:
2	chr10:6409324..6412633-chr10:6424291..6427904,3	MCF-7	breast:
3	chr10:6423351..6425174-chr10:6425567..6427975,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000213994	Chromatin interaction
ENSG00000170525	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs11258372	0.89[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv1054044	chr10:6155144-6487217	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv894836	chr10:6246678-6435374	Flanking Active TSS Strong transcription Weak transcription Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv430123	chr10:6309402-6448384	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv430125	chr10:6322167-6477267	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	nsv1053440	chr10:6354798-6669469	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
7	nsv5676	chr10:6381200-6428950	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv508567	chr10:6407682-6427637	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6423200-6425200	Enhancers	Primary B cells from peripheral blood	blood
2	chr10:6423400-6425600	Enhancers	Placenta	Placenta
3	chr10:6423400-6425600	Enhancers	Spleen	Spleen
4	chr10:6423400-6426000	Enhancers	Colon Smooth Muscle	Colon
5	chr10:6423400-6426200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr10:6423400-6428400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr10:6423600-6425200	Enhancers	Primary hematopoietic stem cells	blood
8	chr10:6423600-6425200	Flanking Active TSS	Stomach Smooth Muscle	stomach
9	chr10:6423600-6425400	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr10:6423600-6425400	Enhancers	Duodenum Smooth Muscle	Duodenum
11	chr10:6423600-6425400	Enhancers	Skeletal Muscle Male	skeletal muscle
12	chr10:6423600-6425400	Enhancers	Thymus	Thymus
13	chr10:6423600-6425400	Flanking Active TSS	HSMMtube	muscle
14	chr10:6423600-6425600	Enhancers	Brain Germinal Matrix	brain
15	chr10:6423600-6425600	Enhancers	NHDF-Ad	bronchial
16	chr10:6423800-6425200	Enhancers	Fetal Thymus	thymus
17	chr10:6423800-6425400	Enhancers	Fetal Lung	lung
18	chr10:6423800-6425400	Enhancers	Sigmoid Colon	Sigmoid Colon
19	chr10:6423800-6425400	Enhancers	NH-A	brain
20	chr10:6423800-6425600	Enhancers	Aorta	Aorta
21	chr10:6423800-6425600	Enhancers	Brain Angular Gyrus	brain
22	chr10:6423800-6425600	Enhancers	Fetal Stomach	stomach
23	chr10:6423800-6425800	Enhancers	Cortex derived primary cultured neurospheres	brain
24	chr10:6423800-6425800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr10:6424000-6425600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr10:6424000-6425600	Enhancers	HUVEC	blood vessel
27	chr10:6424200-6425600	Enhancers	NHLF	lung
28	chr10:6424400-6425200	Weak transcription	Lung	lung
29	chr10:6424400-6425600	Enhancers	Ovary	ovary
30	chr10:6424600-6425200	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr10:6424600-6425400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr10:6424600-6425400	Weak transcription	Gastric	stomach
33	chr10:6424600-6425600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr10:6424600-6425600	Enhancers	Muscle Satellite Cultured Cells	--
35	chr10:6424600-6425600	Enhancers	Adipose Nuclei	Adipose
36	chr10:6424600-6425800	Enhancers	Breast Myoepithelial Primary Cells	Breast
37	chr10:6424600-6425800	Enhancers	Rectal Smooth Muscle	rectum
38	chr10:6424600-6426000	Enhancers	Brain Inferior Temporal Lobe	brain
39	chr10:6424600-6426200	Enhancers	Right Atrium	heart
40	chr10:6424600-6427000	Weak transcription	Colonic Mucosa	Colon
41	chr10:6424800-6425200	Enhancers	Primary T cells from cord blood	blood
42	chr10:6424800-6425400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr10:6424800-6426600	Enhancers	Brain Substantia Nigra	brain
44	chr10:6424800-6427400	Weak transcription	Skeletal Muscle Female	skeletal muscle
45	chr10:6424800-6428200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
46	chr10:6424800-6429200	Enhancers	Primary neutrophils fromperipheralblood	blood
47	chr10:6425000-6425600	Enhancers	Brain Cingulate Gyrus	brain
48	chr10:6425000-6425600	Enhancers	A549	lung
49	chr10:6425000-6425600	Enhancers	Dnd41	blood
50	chr10:6425000-6425600	Enhancers	HSMM	muscle

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