Variant report

Variant	rs1007351
Chromosome Location	chr21:40900779-40900780
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr21:40899001..40900930-chr21:40949117..40954040,4	MCF-7	breast:
2	chr21:40900284..40901980-chr21:41045530..41047230,2	MCF-7	breast:
3	chr21:40898411..40901316-chr21:40977081..40979354,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SH3BGR-1	chr21:40898286-40901782	NONHSAT082198

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1006601	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11088481	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12626648	0.85[AMR][1000 genomes]
rs13046966	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1475595	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1571714	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1571715	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1977529	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2246616	1.00[YRI][hapmap]
rs2837043	1.00[YRI][hapmap]
rs2837054	1.00[YRI][hapmap]
rs2837071	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2837073	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34592006	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3916994	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4239803	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4239804	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4239805	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4818046	1.00[YRI][hapmap]
rs4818051	0.82[AMR][1000 genomes]
rs485224	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs539187	1.00[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs645495	0.92[ASN][1000 genomes]
rs6517554	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7275680	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7275824	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7279098	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7281149	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7283356	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8130455	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs928290	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs928291	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs928292	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1059868	chr21:40711535-41043291	Active TSS Enhancers Genic enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv1061454	chr21:40757973-41265404	Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
3	nsv1062088	chr21:40838027-40919253	Enhancers Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	esv2756754	chr21:40857523-40966156	Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	esv2758820	chr21:40857523-40966156	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	esv34779	chr21:40884871-40977473	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv433457	chr21:40900348-40964553	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:40888200-40907400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr21:40894400-40901600	Enhancers	Pancreas	Pancrea
3	chr21:40895800-40909600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr21:40896000-40903000	Weak transcription	Brain Substantia Nigra	brain
5	chr21:40896200-40900800	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr21:40898600-40900800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr21:40898800-40900800	Enhancers	Skeletal Muscle Male	skeletal muscle
8	chr21:40899000-40901000	Enhancers	Fetal Intestine Small	intestine
9	chr21:40899000-40901400	Enhancers	Stomach Mucosa	stomach
10	chr21:40899200-40901200	Enhancers	Lung	lung
11	chr21:40899400-40901000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr21:40899600-40900800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
13	chr21:40899600-40901000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr21:40899600-40901000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr21:40899600-40901000	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
16	chr21:40899600-40901000	Weak transcription	Small Intestine	intestine
17	chr21:40899800-40900800	Enhancers	Fetal Heart	heart
18	chr21:40899800-40901400	Enhancers	Spleen	Spleen
19	chr21:40900000-40900800	Bivalent Enhancer	Adipose Nuclei	Adipose
20	chr21:40900000-40903000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr21:40900000-40905600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr21:40900200-40900800	Enhancers	Liver	Liver
23	chr21:40900200-40900800	Enhancers	HepG2	liver
24	chr21:40900200-40901000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr21:40900200-40901000	Enhancers	Colonic Mucosa	Colon
26	chr21:40900200-40902800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr21:40900200-40903000	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr21:40900400-40900800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
29	chr21:40900400-40901000	Weak transcription	Right Ventricle	heart
30	chr21:40900400-40901600	Bivalent Enhancer	Placenta	Placenta
31	chr21:40900400-40902600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr21:40900400-40903000	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr21:40900600-40901400	Enhancers	Duodenum Mucosa	Duodenum
34	chr21:40900600-40903000	Weak transcription	Cortex derived primary cultured neurospheres	brain

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