Variant report

Variant	rs11249893
Chromosome Location	chr8:8700851-8700852
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	chr8:8695643..8697451-chr8:8700817..8702338,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1039915	0.88[EUR][1000 genomes]
rs1039916	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11775523	0.89[EUR][1000 genomes]
rs11777085	0.83[EUR][1000 genomes]
rs11784052	0.83[EUR][1000 genomes]
rs12545499	0.89[EUR][1000 genomes]
rs12547493	0.86[EUR][1000 genomes]
rs12682352	0.81[EUR][1000 genomes]
rs13254903	0.87[ASN][1000 genomes]
rs13259070	0.84[EUR][1000 genomes]
rs13259216	0.87[EUR][1000 genomes]
rs1510934	0.84[EUR][1000 genomes]
rs1533058	0.87[EUR][1000 genomes]
rs1533059	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2409092	0.88[EUR][1000 genomes]
rs2409096	0.85[EUR][1000 genomes]
rs35039922	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35431455	0.85[EUR][1000 genomes]
rs408459	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4382480	0.81[EUR][1000 genomes]
rs4481596	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4840362	0.83[EUR][1000 genomes]
rs4841045	0.82[EUR][1000 genomes]
rs4841051	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4841055	0.83[ASN][1000 genomes]
rs57312668	0.88[EUR][1000 genomes]
rs59046059	0.82[EUR][1000 genomes]
rs60315134	0.83[EUR][1000 genomes]
rs6601265	0.87[ASN][1000 genomes]
rs6996376	0.82[ASN][1000 genomes]
rs7820146	0.86[EUR][1000 genomes]
rs7823757	0.83[EUR][1000 genomes]
rs7832968	0.81[EUR][1000 genomes]
rs7833171	0.86[EUR][1000 genomes]
rs882462	0.88[EUR][1000 genomes]
rs907180	0.84[EUR][1000 genomes]
rs907181	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv890331	chr8:8093240-8971100	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1019606	chr8:8353661-8736992	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv539456	chr8:8353661-8736992	Strong transcription Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv995047	chr8:8353662-8857913	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
5	nsv1022511	chr8:8493992-8737132	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
6	nsv539457	chr8:8493992-8737132	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv831228	chr8:8608387-8790790	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
8	nsv1018828	chr8:8609880-8790660	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
9	nsv1022331	chr8:8610035-8787981	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
10	nsv917117	chr8:8621658-9313799	Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
11	nsv890338	chr8:8669622-8707970	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv1015437	chr8:8681255-8723798	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv1023221	chr8:8695393-8722418	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	nsv1024055	chr8:8697249-8721016	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	nsv539459	chr8:8697249-8721016	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs11249893	BLK	Cis_chr	lymphoblastoid	RTeQTL
rs11249893	C8orf5	Cis_chr	lymphoblastoid	RTeQTL
rs11249893	FAM86B3P	cis	Esophagus Mucosa	GTEx
rs11249893	SGK223	cis	Thyroid	GTEx

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:8667200-8701600	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr8:8667600-8701000	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr8:8670000-8701200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr8:8670200-8701200	Weak transcription	Duodenum Mucosa	Duodenum
5	chr8:8670400-8705400	Weak transcription	Primary hematopoietic stem cells	blood
6	chr8:8674800-8701800	Weak transcription	Primary T cells from cord blood	blood
7	chr8:8678800-8701600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr8:8679600-8701400	Weak transcription	A549	lung
9	chr8:8679600-8701600	Weak transcription	HepG2	liver
10	chr8:8683200-8701400	Weak transcription	Fetal Intestine Small	intestine
11	chr8:8683800-8701000	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr8:8684600-8703800	Weak transcription	Dnd41	blood
13	chr8:8686400-8702000	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr8:8686600-8705600	Weak transcription	Right Atrium	heart
15	chr8:8686800-8702400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr8:8687000-8701400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr8:8687600-8706600	Weak transcription	Lung	lung
18	chr8:8692200-8701200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr8:8692200-8702000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr8:8692200-8717600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr8:8692400-8701000	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr8:8692600-8701000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr8:8692600-8703200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr8:8692600-8707000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr8:8694200-8701600	Weak transcription	Small Intestine	intestine
26	chr8:8695000-8701400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr8:8695200-8701600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr8:8695400-8701400	Weak transcription	NHDF-Ad	bronchial
29	chr8:8695400-8701800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr8:8696000-8701400	Weak transcription	K562	blood
31	chr8:8697200-8704000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
32	chr8:8698600-8701600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr8:8699000-8705600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
34	chr8:8699200-8702400	Enhancers	Rectal Smooth Muscle	rectum
35	chr8:8699200-8703800	Enhancers	Primary T helper cells PMA-I stimulated	--
36	chr8:8699400-8701000	Weak transcription	Fetal Muscle Leg	muscle
37	chr8:8699400-8701400	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr8:8699400-8702000	Weak transcription	Brain Hippocampus Middle	brain
39	chr8:8699400-8705400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr8:8699400-8729600	Weak transcription	Fetal Stomach	stomach
41	chr8:8699600-8701200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
42	chr8:8699600-8701600	Weak transcription	Brain Angular Gyrus	brain
43	chr8:8699600-8701600	Weak transcription	Brain Anterior Caudate	brain
44	chr8:8699600-8701600	Weak transcription	Fetal Lung	lung
45	chr8:8699600-8701600	Weak transcription	HSMMtube	muscle
46	chr8:8699600-8701800	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr8:8699600-8702000	Weak transcription	Aorta	Aorta
48	chr8:8699800-8704000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
49	chr8:8699800-8705800	Enhancers	Primary T cells fromperipheralblood	blood
50	chr8:8700000-8701400	Weak transcription	Stomach Smooth Muscle	stomach

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