Variant report

Variant	rs11904106
Chromosome Location	chr2:188405415-188405416
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:188404419..188406273-chr2:188410816..188412480,2	MCF-7	breast:
2	chr2:188365827..188368256-chr2:188403673..188406049,2	MCF-7	breast:
3	chr2:188382405..188385031-chr2:188403850..188405817,2	K562	blood:
4	chr2:188367231..188371096-chr2:188401019..188405423,6	K562	blood:
5	chr2:188398970..188401688-chr2:188404214..188406089,3	K562	blood:
6	chr2:188349831..188352709-chr2:188404428..188405999,2	K562	blood:

Variant related genes	Relation type
ENSG00000003436	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs11885418	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11904057	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:22 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv875560	chr2:188219052-188508011	Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv875561	chr2:188226900-188440752	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers 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
3	nsv875564	chr2:188258904-188414161	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv875565	chr2:188258904-188440752	Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv875566	chr2:188258904-188626214	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv875567	chr2:188258904-188673462	Flanking Active TSS ZNF genes & repeats Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
7	nsv834488	chr2:188268434-188415496	Enhancers Strong transcription Active TSS Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
8	nsv875568	chr2:188291105-188653806	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
9	nsv875576	chr2:188343497-188482933	Transcr. at gene 5' and 3' Genic enhancers Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv875577	chr2:188343497-188500930	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv875578	chr2:188343497-188690187	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
12	nsv997899	chr2:188356689-188531831	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
13	nsv1014298	chr2:188359747-188531831	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
14	nsv1013166	chr2:188359747-188544803	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
15	nsv1014942	chr2:188360116-188480738	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
16	nsv584038	chr2:188370232-188450136	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
17	nsv875580	chr2:188370232-188521234	Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
18	esv2757845	chr2:188380042-188503185	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
19	esv2759108	chr2:188380042-188503185	ZNF genes & repeats Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
20	nsv875581	chr2:188390819-188521234	Enhancers Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
21	nsv875582	chr2:188395700-188508011	Enhancers Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
22	nsv875583	chr2:188395700-188521234	Active TSS Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:188381800-188406000	Weak transcription	Small Intestine	intestine
2	chr2:188381800-188406600	Weak transcription	Aorta	Aorta
3	chr2:188385200-188406000	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr2:188387000-188406000	Weak transcription	Fetal Intestine Large	intestine
5	chr2:188387200-188406000	Weak transcription	HSMMtube	muscle
6	chr2:188391800-188405800	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr2:188392200-188413200	Weak transcription	Psoas Muscle	Psoas
8	chr2:188392400-188409200	Weak transcription	Ovary	ovary
9	chr2:188393000-188406200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr2:188394800-188405800	Weak transcription	NHLF	lung
11	chr2:188394800-188408400	Weak transcription	K562	blood
12	chr2:188395400-188405800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr2:188397800-188405800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr2:188397800-188406400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr2:188398000-188409200	Weak transcription	Fetal Muscle Trunk	muscle
16	chr2:188398200-188406000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr2:188398200-188406000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr2:188398200-188406000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr2:188398200-188406000	Weak transcription	Fetal Intestine Small	intestine
20	chr2:188398200-188409200	Weak transcription	Lung	lung
21	chr2:188398200-188409200	Weak transcription	Pancreas	Pancrea
22	chr2:188398200-188409600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr2:188398200-188409600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr2:188398400-188406600	Weak transcription	Placenta	Placenta
25	chr2:188398400-188418000	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr2:188400000-188405800	Weak transcription	Liver	Liver
27	chr2:188401800-188408000	Weak transcription	Primary hematopoietic stem cells	blood
28	chr2:188402200-188406000	Weak transcription	Fetal Lung	lung
29	chr2:188403200-188405800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr2:188403400-188406000	Weak transcription	HUES6 Cell Line	embryonic stem cell
31	chr2:188403400-188406000	Weak transcription	Fetal Muscle Leg	muscle
32	chr2:188403600-188406000	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr2:188403600-188406200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr2:188403800-188405800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr2:188403800-188407000	Enhancers	HepG2	liver
36	chr2:188404200-188405800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr2:188404200-188406000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr2:188404600-188405600	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr2:188404600-188406000	Weak transcription	HUES48 Cell Line	embryonic stem cell
40	chr2:188404600-188406400	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr2:188404800-188405600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr2:188404800-188405600	Strong transcription	Fetal Stomach	stomach
43	chr2:188404800-188406000	Genic enhancers	Hela-S3	cervix
44	chr2:188404800-188406000	Enhancers	NH-A	brain
45	chr2:188404800-188410000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr2:188405000-188406000	Genic enhancers	HUVEC	blood vessel
47	chr2:188405200-188405800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr2:188405200-188405800	Enhancers	A549	lung
49	chr2:188405200-188405800	Weak transcription	HSMM	muscle
50	chr2:188405200-188405800	Weak transcription	NHDF-Ad	bronchial

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