Variant report

Variant	rs9513228
Chromosome Location	chr13:97947394-97947395
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:97946659..97950744-chr13:97950983..97954750,4	MCF-7	breast:
2	chr13:97942503..97945299-chr13:97946512..97948941,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10508030	0.82[EUR][1000 genomes]
rs10508031	0.82[EUR][1000 genomes]
rs12864731	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1328834	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16951504	0.82[EUR][1000 genomes]
rs16954000	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16954002	0.82[EUR][1000 genomes]
rs17235614	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs17301362	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2389823	0.85[CEU][hapmap]
rs35039622	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35538229	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56940858	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57526148	0.82[EUR][1000 genomes]
rs58421118	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59357402	0.82[EUR][1000 genomes]
rs61255793	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7999038	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9513227	0.88[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9513229	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9513230	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9513231	1.00[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs9516891	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9516895	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9516896	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9516897	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9516898	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9516899	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs953504	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][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	nsv1045777	chr13:97875574-97955134	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription 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	3 gene(s)	inside rSNPs	diseases
2	nsv832694	chr13:97930561-98137882	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:97914200-97960200	Weak transcription	Fetal Brain Male	brain
2	chr13:97925800-97987200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr13:97929400-97955000	Weak transcription	Fetal Muscle Trunk	muscle
4	chr13:97929600-97953400	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr13:97929800-97953200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr13:97929800-97953400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr13:97931000-97953600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr13:97931200-97949000	Weak transcription	Primary hematopoietic stem cells	blood
9	chr13:97933000-97947800	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr13:97933000-97953600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr13:97933200-97947400	Weak transcription	Duodenum Mucosa	Duodenum
12	chr13:97933200-97949600	Weak transcription	Primary B cells from peripheral blood	blood
13	chr13:97933200-97970400	Weak transcription	Placenta	Placenta
14	chr13:97933400-97952400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr13:97933600-97949200	Weak transcription	K562	blood
16	chr13:97933600-97953600	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr13:97934000-97954400	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr13:97935600-97954800	Weak transcription	Colonic Mucosa	Colon
19	chr13:97935800-97947400	Weak transcription	Stomach Mucosa	stomach
20	chr13:97935800-97949400	Weak transcription	Primary B cells from cord blood	blood
21	chr13:97936800-97949400	Weak transcription	Ovary	ovary
22	chr13:97936800-97949400	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr13:97936800-97952200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr13:97937000-97951400	Weak transcription	Primary monocytes fromperipheralblood	blood
25	chr13:97937200-97947600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr13:97938000-97947600	Weak transcription	Fetal Lung	lung
27	chr13:97938200-97947600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr13:97938600-97947400	Weak transcription	Hela-S3	cervix
29	chr13:97938800-97947400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr13:97939200-97947400	Weak transcription	HSMM	muscle
31	chr13:97939200-97948800	Weak transcription	Fetal Intestine Small	intestine
32	chr13:97939200-97949200	Weak transcription	Primary T cells from cord blood	blood
33	chr13:97939600-97949200	Weak transcription	Right Ventricle	heart
34	chr13:97939600-97949600	Weak transcription	Lung	lung
35	chr13:97941200-97947400	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr13:97941200-97950600	Weak transcription	Fetal Kidney	kidney
37	chr13:97941400-97949200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr13:97942200-97950800	Weak transcription	Small Intestine	intestine
39	chr13:97942800-97949200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr13:97942800-97995200	Weak transcription	Thymus	Thymus
41	chr13:97943400-97947600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr13:97943400-97949200	Weak transcription	Left Ventricle	heart
43	chr13:97943400-97953600	Weak transcription	Esophagus	oesophagus
44	chr13:97943400-97957800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr13:97944000-97949200	Weak transcription	Right Atrium	heart
46	chr13:97945400-97948000	Enhancers	Skeletal Muscle Male	skeletal muscle
47	chr13:97946000-97947600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr13:97946400-97947600	Enhancers	Stomach Smooth Muscle	stomach
49	chr13:97946400-97948200	Enhancers	Brain Angular Gyrus	brain
50	chr13:97946400-97949400	Enhancers	Liver	Liver

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