Variant report

Variant	rs4403877
Chromosome Location	chr12:121473005-121473006
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:121472155..121474661-chr12:121478426..121481122,2	K562	blood:
2	chr12:120729256..120731429-chr12:121471533..121473045,2	MCF-7	breast:
3	chr12:121471397..121473334-chr12:121474789..121478157,3	MCF-7	breast:
4	chr12:121463340..121465773-chr12:121472717..121474961,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000200795	Chromatin interaction
ENSG00000135114	Chromatin interaction
ENSG00000202538	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10849831	0.96[ASN][1000 genomes]
rs10849832	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10849833	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.85[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs12231806	0.80[ASN][1000 genomes]
rs12315068	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1984841	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28969490	0.92[ASN][1000 genomes]
rs3213546	0.89[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs7134069	0.90[ASN][1000 genomes]
rs7134141	0.80[ASN][1000 genomes]
rs7969063	0.94[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv521928	chr12:121041728-121761800	Genic enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
2	nsv899559	chr12:121324727-121592689	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv899560	chr12:121371233-121560581	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv899561	chr12:121376416-121525591	Enhancers Flanking Active TSS Active TSS Genic enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
5	nsv899562	chr12:121376416-121565870	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	esv2758318	chr12:121415845-121584813	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
7	esv2759917	chr12:121415845-121584813	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
8	nsv1039216	chr12:121421701-121538491	Active TSS Flanking Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
9	nsv832531	chr12:121440495-121604232	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
10	nsv560454	chr12:121457073-121745742	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats 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	29 gene(s)	inside rSNPs	diseases
11	esv3421024	chr12:121471004-121493702	Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:121454400-121475800	Weak transcription	Adipose Nuclei	Adipose
2	chr12:121454400-121476000	Weak transcription	Rectal Smooth Muscle	rectum
3	chr12:121454400-121476400	Weak transcription	Right Atrium	heart
4	chr12:121454600-121476200	Weak transcription	Brain Hippocampus Middle	brain
5	chr12:121454600-121476200	Weak transcription	Gastric	stomach
6	chr12:121470200-121476200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr12:121470400-121476200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
8	chr12:121471000-121474200	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr12:121471000-121476000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
10	chr12:121471200-121473600	Enhancers	Lung	lung
11	chr12:121471200-121474200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
12	chr12:121471200-121475200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr12:121471200-121475400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr12:121471400-121475200	Enhancers	HSMM	muscle
15	chr12:121471600-121473200	Enhancers	Fetal Thymus	thymus
16	chr12:121471600-121473200	Enhancers	Osteobl	bone
17	chr12:121471600-121474000	Weak transcription	Small Intestine	intestine
18	chr12:121471600-121476000	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr12:121471600-121476200	Weak transcription	Colonic Mucosa	Colon
20	chr12:121471800-121473400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr12:121471800-121474800	Weak transcription	Liver	Liver
22	chr12:121471800-121475000	Enhancers	Stomach Mucosa	stomach
23	chr12:121472200-121476400	Weak transcription	Esophagus	oesophagus
24	chr12:121472400-121473400	Weak transcription	GM12878-XiMat	blood
25	chr12:121472400-121473600	Enhancers	Hela-S3	cervix
26	chr12:121472400-121474200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr12:121472400-121474200	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr12:121472400-121474600	Enhancers	Monocytes-CD14+_RO01746	blood
29	chr12:121472400-121474800	Enhancers	Primary T cells fromperipheralblood	blood
30	chr12:121472400-121475200	Weak transcription	Duodenum Mucosa	Duodenum
31	chr12:121472600-121473200	Enhancers	Rectal Mucosa Donor 29	rectum
32	chr12:121472600-121474000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr12:121472600-121474200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr12:121472600-121474200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr12:121472600-121474600	Weak transcription	NH-A	brain
36	chr12:121472600-121475400	Enhancers	Muscle Satellite Cultured Cells	--
37	chr12:121472600-121476000	Enhancers	Primary T helper cells fromperipheralblood	blood
38	chr12:121472800-121474000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr12:121472800-121474200	Weak transcription	Spleen	Spleen
40	chr12:121472800-121474400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
41	chr12:121472800-121474800	Enhancers	Primary T helper cells PMA-I stimulated	--
42	chr12:121472800-121476000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
43	chr12:121472800-121476200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
44	chr12:121472800-121476200	Weak transcription	A549	lung
45	chr12:121473000-121474000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr12:121473000-121474000	Weak transcription	Primary monocytes fromperipheralblood	blood
47	chr12:121473000-121474000	Weak transcription	HMEC	breast
48	chr12:121473000-121474200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr12:121473000-121474200	Weak transcription	NHDF-Ad	bronchial
50	chr12:121473000-121474200	Weak transcription	NHEK	skin

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