Variant report

Variant	rs9380498
Chromosome Location	chr6:35166157-35166158
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:35165480..35167314-chr6:35214430..35217292,2	MCF-7	breast:
2	chr6:35132111..35134343-chr6:35165160..35168099,4	MCF-7	breast:
3	chr6:35160680..35162385-chr6:35165533..35168085,2	MCF-7	breast:
4	chr6:35165622..35167133-chr6:35170794..35173161,2	MCF-7	breast:
5	chr6:35146928..35151829-chr6:35162484..35168348,5	K562	blood:
6	chr6:35133862..35136127-chr6:35165678..35167880,2	MCF-7	breast:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SCUBE3-3	chr6:35166103-35166815	NONHSAT112163

No data

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs10080361	0.87[CHB][hapmap];0.82[JPT][hapmap];0.89[ASN][1000 genomes]
rs1013907	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10807150	0.81[ASN][1000 genomes]
rs10947540	0.86[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs1108709	0.82[ASN][1000 genomes]
rs1194	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.92[YRI][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12173582	0.81[JPT][hapmap]
rs13214290	0.86[CHB][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs1557567	0.81[ASN][1000 genomes]
rs1557568	0.81[ASN][1000 genomes]
rs1590381	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1888822	0.82[ASN][1000 genomes]
rs1888823	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1888824	0.86[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs1888825	0.86[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs1894650	0.80[CEU][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs1894651	0.80[CHB][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs1894652	0.86[ASN][1000 genomes]
rs1894653	0.80[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs1929847	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1929848	0.93[YRI][hapmap]
rs1929849	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1987673	0.82[ASN][1000 genomes]
rs2006184	0.86[ASN][1000 genomes]
rs2018373	0.83[ASN][1000 genomes]
rs2032538	0.80[CHB][hapmap];0.86[JPT][hapmap]
rs2071920	0.81[ASN][1000 genomes]
rs2183834	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2267658	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2267660	0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs2267661	0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs2267662	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.92[YRI][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2267663	0.87[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs2267664	0.86[JPT][hapmap]
rs2284195	0.90[ASN][1000 genomes]
rs2395614	0.82[ASN][1000 genomes]
rs3798342	0.80[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs3798343	0.81[JPT][hapmap]
rs3800382	0.80[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs3800383	0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs3800385	0.86[CHB][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs3800386	0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs3800387	0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs3800388	0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs3800392	1.00[CEU][hapmap];0.80[CHB][hapmap];0.86[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3800393	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3800396	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3800398	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3800399	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3800401	0.90[ASN][1000 genomes]
rs4711409	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4711411	0.86[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs4711413	0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs4711414	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4713841	0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4713845	0.87[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs4713848	0.85[JPT][hapmap];0.84[ASN][1000 genomes]
rs58925593	0.86[ASN][1000 genomes]
rs62403575	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6457812	0.81[ASN][1000 genomes]
rs68164647	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6902523	1.00[CEU][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6907324	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6907573	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6907795	0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6913037	0.87[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs6913941	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6916364	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6919534	0.89[YRI][hapmap]
rs6920747	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6927730	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6928769	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6933979	0.93[CHB][hapmap];0.81[JPT][hapmap]
rs6938946	0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs6940375	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72909061	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7763946	0.92[ASN][1000 genomes]
rs7769906	0.90[ASN][1000 genomes]
rs7772212	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8205	0.86[CEU][hapmap];0.81[ASN][1000 genomes]
rs914547	0.86[CHB][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9296144	1.00[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9348970	0.86[CEU][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9366882	0.81[ASN][1000 genomes]
rs9366883	0.87[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs9368854	0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs9368857	0.80[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs9380497	0.90[ASN][1000 genomes]
rs9380500	0.80[CEU][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap];0.83[YRI][hapmap]
rs9380501	1.00[CEU][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9380502	0.81[ASN][1000 genomes]
rs9394283	0.92[ASN][1000 genomes]
rs9394288	0.87[CHB][hapmap];0.86[JPT][hapmap]
rs9394289	0.90[ASN][1000 genomes]
rs9469953	0.93[CHB][hapmap];0.81[JPT][hapmap]
rs9469958	0.88[ASN][1000 genomes]
rs9469964	0.86[CHB][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs9469972	0.81[ASN][1000 genomes]
rs9469975	0.80[ASN][1000 genomes]
rs9469979	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9469982	0.86[CEU][hapmap];0.81[ASN][1000 genomes]
rs965272	0.81[ASN][1000 genomes]
rs968828	0.82[ASN][1000 genomes]
rs975496	1.00[CEU][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs991145	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3428128	chr6:35150524-35225843	Bivalent Enhancer Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35154000-35169800	Weak transcription	Right Atrium	heart
2	chr6:35154400-35169200	Weak transcription	Fetal Heart	heart
3	chr6:35158600-35167200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr6:35161000-35167800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr6:35161600-35167800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:35161600-35169400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:35161600-35170000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:35163200-35171200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr6:35163600-35167200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr6:35163600-35171000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr6:35165200-35166200	Weak transcription	Osteobl	bone
12	chr6:35165200-35169400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr6:35165200-35171200	Weak transcription	NH-A	brain
14	chr6:35165400-35167000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr6:35165400-35167800	Weak transcription	HMEC	breast
16	chr6:35165600-35168000	Enhancers	Muscle Satellite Cultured Cells	--
17	chr6:35165600-35169400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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