Variant report

Variant	rs2270909
Chromosome Location	chr5:36109797-36109798
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:36108689..36111420-chr5:36150386..36152969,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145604	Chromatin interaction
ENSG00000164187	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10512648	0.84[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10941274	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12655033	0.84[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12655052	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12655301	0.85[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12657634	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16902727	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs267786	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs267790	0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs28362652	0.91[ASN][1000 genomes]
rs28362653	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs33674	0.86[CHB][hapmap]
rs35071851	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35708472	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3804440	0.86[CHB][hapmap]
rs4869463	0.85[ASN][1000 genomes]
rs4869465	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4869615	0.89[JPT][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs71617744	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]

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	esv32711	chr5:36047797-36146166	Weak transcription Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv830262	chr5:36074311-36293872	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	63 gene(s)	inside rSNPs	diseases
3	nsv4795	chr5:36106115-36150407	Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:36092800-36116200	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr5:36096600-36128600	Weak transcription	Fetal Brain Male	brain
3	chr5:36098800-36113200	Weak transcription	Fetal Stomach	stomach
4	chr5:36099000-36116800	Weak transcription	Fetal Intestine Small	intestine
5	chr5:36100200-36127600	Weak transcription	Pancreas	Pancrea
6	chr5:36100200-36139400	Weak transcription	Gastric	stomach
7	chr5:36100800-36127600	Weak transcription	Spleen	Spleen
8	chr5:36101200-36150800	Weak transcription	Colonic Mucosa	Colon
9	chr5:36102000-36118400	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr5:36102200-36118400	Strong transcription	Primary monocytes fromperipheralblood	blood
11	chr5:36102400-36110400	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr5:36102400-36111800	Strong transcription	Duodenum Mucosa	Duodenum
13	chr5:36102600-36129200	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr5:36102600-36141400	Weak transcription	Hela-S3	cervix
15	chr5:36103000-36114400	Strong transcription	HSMM	muscle
16	chr5:36103000-36128000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr5:36103400-36111200	Strong transcription	Duodenum Smooth Muscle	Duodenum
18	chr5:36103600-36118400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr5:36103600-36147200	Weak transcription	HUVEC	blood vessel
20	chr5:36103800-36110400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr5:36103800-36110800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr5:36103800-36117600	Strong transcription	Primary T helper cells PMA-I stimulated	--
23	chr5:36103800-36118400	Strong transcription	Liver	Liver
24	chr5:36104000-36109800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr5:36104000-36110800	Strong transcription	Rectal Mucosa Donor 29	rectum
26	chr5:36104000-36111000	Strong transcription	Fetal Intestine Large	intestine
27	chr5:36104000-36111600	Strong transcription	Primary T helper cells fromperipheralblood	blood
28	chr5:36104000-36118400	Strong transcription	Primary B cells from peripheral blood	blood
29	chr5:36104000-36118600	Strong transcription	Primary T cells fromperipheralblood	blood
30	chr5:36104200-36112600	Strong transcription	Primary hematopoietic stem cells	blood
31	chr5:36104800-36139400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr5:36105200-36110000	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr5:36105400-36128000	Weak transcription	Lung	lung
34	chr5:36105600-36125600	Weak transcription	Fetal Heart	heart
35	chr5:36105600-36142400	Weak transcription	NH-A	brain
36	chr5:36106000-36110800	Strong transcription	Primary B cells from cord blood	blood
37	chr5:36106000-36110800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr5:36106200-36129200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
39	chr5:36106200-36139800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr5:36107400-36111600	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
41	chr5:36108000-36115400	Weak transcription	Psoas Muscle	Psoas
42	chr5:36108200-36110200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr5:36108200-36112000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr5:36108200-36113000	Weak transcription	Left Ventricle	heart
45	chr5:36108200-36113400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr5:36108200-36113800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr5:36108200-36114000	Weak transcription	NHDF-Ad	bronchial
48	chr5:36108200-36115400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
49	chr5:36108200-36115400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr5:36108200-36115400	Weak transcription	Colon Smooth Muscle	Colon

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