Variant report

Variant	rs13318497
Chromosome Location	chr3:111402062-111402063
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:111400187..111402478-chr3:111409192..111410836,3	MCF-7	breast:
2	chr3:111393572..111395550-chr3:111399941..111402074,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000240891	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs13317514	0.90[EUR][1000 genomes]
rs13323806	0.82[EUR][1000 genomes]
rs58009050	0.82[AFR][1000 genomes]
rs6796920	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.81[EUR][1000 genomes]
rs7611571	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs7628128	0.81[EUR][1000 genomes]
rs7630578	0.85[EUR][1000 genomes]
rs7646687	0.81[EUR][1000 genomes]
rs9809793	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9822709	0.95[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9838059	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9844477	0.81[EUR][1000 genomes]
rs9859457	0.85[YRI][hapmap]
rs9875538	0.95[AFR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111394200-111403600	Weak transcription	Pancreas	Pancrea
2	chr3:111395400-111403600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:111395800-111413400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:111396400-111406800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:111396400-111408200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr3:111396600-111409200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr3:111397000-111403200	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr3:111397000-111403600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr3:111397000-111403600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr3:111397000-111404800	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr3:111397200-111408000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr3:111397200-111408200	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr3:111399000-111409400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr3:111400400-111408200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr3:111400800-111403800	Weak transcription	Small Intestine	intestine
16	chr3:111400800-111407200	Weak transcription	Hela-S3	cervix
17	chr3:111400800-111408400	Weak transcription	HMEC	breast
18	chr3:111400800-111409000	Weak transcription	HSMMtube	muscle
19	chr3:111400800-111411800	Weak transcription	Primary B cells from cord blood	blood
20	chr3:111401000-111403600	Weak transcription	Fetal Thymus	thymus
21	chr3:111401000-111404800	Weak transcription	A549	lung
22	chr3:111401000-111412000	Weak transcription	Stomach Mucosa	stomach
23	chr3:111401200-111411600	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr3:111401600-111402200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
25	chr3:111401600-111404600	Weak transcription	Primary T cells from cord blood	blood
26	chr3:111401600-111405800	Weak transcription	Fetal Intestine Large	intestine
27	chr3:111401800-111402600	Enhancers	Primary B cells from peripheral blood	blood
28	chr3:111401800-111405800	Weak transcription	Fetal Intestine Small	intestine
29	chr3:111402000-111402600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr3:111402000-111402600	Flanking Active TSS	GM12878-XiMat	blood
31	chr3:111402000-111404400	Weak transcription	HepG2	liver

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