Variant report

Variant	rs10735392
Chromosome Location	chr12:104674198-104674199
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:104673431..104677021-chr12:104679201..104682284,5	MCF-7	breast:
2	chr12:104617675..104620122-chr12:104673280..104676243,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NFYB-1	chr12:104674062-104674500	ENSG00000257732.1

Variant related genes	Relation type
ENSG00000198431	Chromatin interaction

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10735393	1.00[CEU][hapmap];0.85[CHD][hapmap];0.92[JPT][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap];0.96[EUR][1000 genomes]
rs10735395	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10745995	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10745996	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10778311	0.83[JPT][hapmap]
rs10778318	0.83[JPT][hapmap]
rs10778323	0.81[CEU][hapmap];0.85[CHD][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap]
rs10861180	0.82[JPT][hapmap]
rs10861204	1.00[CEU][hapmap];0.85[CHB][hapmap];0.83[JPT][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11111943	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11111960	0.83[JPT][hapmap]
rs11111963	0.83[JPT][hapmap]
rs11111983	0.83[AMR][1000 genomes]
rs12426783	0.84[EUR][1000 genomes]
rs17035504	0.86[CEU][hapmap];0.87[MEX][hapmap]
rs17202862	0.93[CEU][hapmap]
rs4129598	1.00[ASW][hapmap];0.86[CEU][hapmap];0.87[MEX][hapmap];0.81[AMR][1000 genomes]
rs4246264	0.93[CEU][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4246269	1.00[CEU][hapmap];0.83[CHB][hapmap];0.83[JPT][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4246270	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4246271	1.00[CEU][hapmap];0.85[CHB][hapmap];0.83[JPT][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4388968	1.00[CEU][hapmap];0.91[AMR][1000 genomes]
rs4447242	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4502051	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4545635	1.00[ASW][hapmap];0.93[CEU][hapmap];0.89[GIH][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4614534	1.00[ASW][hapmap];0.86[CEU][hapmap];0.86[MEX][hapmap];0.80[AMR][1000 genomes]
rs4630362	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs4964227	0.93[CEU][hapmap]
rs4964228	0.93[CEU][hapmap]
rs4964257	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4964260	1.00[ASW][hapmap];0.93[CEU][hapmap];0.89[GIH][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4964288	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];0.89[CHD][hapmap];0.94[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4964627	0.86[CEU][hapmap]
rs4964735	0.83[JPT][hapmap]
rs4964741	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4964752	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4964761	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4964779	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4964784	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6419386	0.91[AMR][1000 genomes]
rs6539128	0.81[AMR][1000 genomes]
rs6539137	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs6539138	0.81[CEU][hapmap];0.85[CHD][hapmap];0.83[JPT][hapmap];0.88[MEX][hapmap]
rs7132418	0.86[CEU][hapmap];0.82[AMR][1000 genomes]
rs7138035	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7138317	0.92[CEU][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7138523	0.83[JPT][hapmap]
rs7139336	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7294997	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7295413	0.83[AMR][1000 genomes]
rs7298613	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7299866	1.00[ASW][hapmap];0.86[CEU][hapmap];0.87[MEX][hapmap]
rs7301631	0.92[JPT][hapmap]
rs7303483	0.86[AMR][1000 genomes]
rs7305872	0.84[AMR][1000 genomes]
rs73181916	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73181919	0.86[EUR][1000 genomes]
rs73181926	0.86[EUR][1000 genomes]
rs7342395	0.83[JPT][hapmap]
rs7957725	0.86[CEU][hapmap]
rs7962423	1.00[CEU][hapmap];0.85[CHB][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7969351	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7969604	0.90[EUR][1000 genomes]
rs7972034	0.80[AMR][1000 genomes]
rs7975161	0.81[MEX][hapmap]
rs7978101	0.84[AMR][1000 genomes]
rs9738614	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9739826	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9739833	1.00[CEU][hapmap];0.85[CHB][hapmap];0.83[JPT][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv899493	chr12:104548613-104703228	Flanking Active TSS Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv899494	chr12:104561521-104806232	Flanking Active TSS Weak transcription Genic enhancers Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv1046606	chr12:104606617-104763734	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
4	nsv1038609	chr12:104613847-104764981	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
5	nsv541587	chr12:104613847-104764981	Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:104667600-104679600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr12:104670400-104674200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr12:104670400-104679600	Weak transcription	Thymus	Thymus
4	chr12:104670600-104679600	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr12:104670600-104679800	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr12:104671400-104674200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr12:104671800-104674200	Weak transcription	HepG2	liver
8	chr12:104672800-104674200	Enhancers	NHEK	skin
9	chr12:104672800-104674600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr12:104672800-104674800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr12:104673000-104676200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
12	chr12:104673200-104676400	Enhancers	HMEC	breast
13	chr12:104673800-104674600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr12:104673800-104674600	Flanking Active TSS	HUVEC	blood vessel
15	chr12:104673800-104676800	Enhancers	K562	blood
16	chr12:104674000-104674200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr12:104674000-104674400	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr12:104674000-104674400	Flanking Active TSS	NH-A	brain
19	chr12:104674000-104674600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr12:104674000-104674600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr12:104674000-104674600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr12:104674000-104674600	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr12:104674000-104674600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
24	chr12:104674000-104674600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr12:104674000-104674600	Enhancers	Rectal Smooth Muscle	rectum
26	chr12:104674000-104674600	Flanking Active TSS	A549	lung
27	chr12:104674000-104674600	Flanking Active TSS	Hela-S3	cervix
28	chr12:104674000-104674600	Flanking Active TSS	HSMM	muscle
29	chr12:104674000-104674600	Flanking Active TSS	HSMMtube	muscle
30	chr12:104674000-104674600	Flanking Active TSS	NHDF-Ad	bronchial
31	chr12:104674000-104674600	Flanking Active TSS	NHLF	lung
32	chr12:104674000-104674600	Flanking Active TSS	Osteobl	bone
33	chr12:104674000-104675000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr12:104674000-104675000	Enhancers	Primary monocytes fromperipheralblood	blood
35	chr12:104674000-104675000	Enhancers	Stomach Mucosa	stomach

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