Variant report

Variant	rs35721478
Chromosome Location	chr6:33725129-33725130
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:33724784..33727400-chr6:33728214..33730024,2	MCF-7	breast:
2	chr6:33724946..33727778-chr6:33732399..33734777,2	MCF-7	breast:
3	chr6:33712420..33715409-chr6:33723991..33728116,4	MCF-7	breast:
4	chr6:33673241..33675350-chr6:33722857..33725675,2	MCF-7	breast:
5	chr6:33723585..33725981-chr6:33736190..33738429,2	MCF-7	breast:
6	chr6:33711077..33714000-chr6:33723904..33727038,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000161896	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10456075	0.82[ASN][1000 genomes]
rs10456420	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs10456421	0.89[EUR][1000 genomes]
rs10947418	0.86[AFR][1000 genomes]
rs10947432	0.82[ASN][1000 genomes]
rs11755257	0.86[AFR][1000 genomes]
rs11757379	0.86[AFR][1000 genomes]
rs11757612	0.86[AFR][1000 genomes]
rs11758330	0.86[AFR][1000 genomes]
rs12153877	0.93[EUR][1000 genomes]
rs12189725	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12192035	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12192087	0.87[EUR][1000 genomes]
rs12193658	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs12195409	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs12198383	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs12199132	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12200154	0.86[AFR][1000 genomes]
rs12203688	0.88[ASN][1000 genomes]
rs12204620	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs12204992	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs12205398	0.87[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs12211490	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12211554	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12211565	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12215329	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12660955	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12661400	0.88[ASN][1000 genomes]
rs12662447	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13195171	0.86[AFR][1000 genomes]
rs13200063	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13204162	0.88[ASN][1000 genomes]
rs13206228	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13207666	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13213889	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13214874	0.82[ASN][1000 genomes]
rs2227925	0.86[AFR][1000 genomes]
rs2274459	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2281831	0.88[ASN][1000 genomes]
rs2296749	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34139049	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34339105	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34460651	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs34472165	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34869648	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34884883	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35274562	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35328423	0.86[EUR][1000 genomes]
rs35366046	0.89[EUR][1000 genomes]
rs35445446	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs35646598	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35698850	0.88[ASN][1000 genomes]
rs35797388	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36122085	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3793080	0.92[EUR][1000 genomes]
rs3806107	0.92[EUR][1000 genomes]
rs66617522	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs66670017	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs68168863	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6925337	0.92[EUR][1000 genomes]
rs71565393	0.86[AFR][1000 genomes]
rs729376	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs751095	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs755239	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs877187	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885772	chr6:33638180-33767727	Bivalent Enhancer Genic enhancers Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases
2	nsv462897	chr6:33717770-33778964	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv602839	chr6:33717770-33778964	Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv462898	chr6:33723383-33768897	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
5	nsv602840	chr6:33723383-33768897	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
6	esv3475116	chr6:33725038-33726834	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33715200-33737800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:33715600-33729400	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr6:33719600-33729000	Weak transcription	Right Atrium	heart
4	chr6:33719800-33727600	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr6:33719800-33729200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr6:33720200-33728000	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr6:33720200-33730600	Weak transcription	Spleen	Spleen
8	chr6:33720400-33728000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr6:33720600-33729400	Weak transcription	Fetal Intestine Large	intestine
10	chr6:33720800-33726200	Weak transcription	Fetal Lung	lung
11	chr6:33721000-33727000	Weak transcription	Fetal Intestine Small	intestine
12	chr6:33721000-33729400	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr6:33721200-33728600	Weak transcription	Fetal Thymus	thymus
14	chr6:33722200-33725400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr6:33723200-33725600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr6:33723400-33729800	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr6:33723400-33736600	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr6:33723600-33727800	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr6:33723600-33728200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr6:33723600-33728800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr6:33723600-33729000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr6:33724000-33730200	Enhancers	Stomach Mucosa	stomach
23	chr6:33724400-33725200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr6:33724400-33725200	Enhancers	Rectal Mucosa Donor 31	rectum
25	chr6:33724800-33725200	Enhancers	Stomach Smooth Muscle	stomach
26	chr6:33724800-33725600	Enhancers	Fetal Stomach	stomach
27	chr6:33725000-33725200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr6:33725000-33725400	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr6:33725000-33726400	Enhancers	Placenta	Placenta
30	chr6:33725000-33728800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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