Variant report

Variant	rs7739273
Chromosome Location	chr6:33758065-33758066
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:33754585-33758231	HepG2	liver:	n/a	n/a
2	TEAD4	chr6:33758048-33758489	H1-hESC	embryonic stem cell:	n/a	n/a
3	TEAD4	chr6:33758055-33758412	H1-hESC	embryonic stem cell:	n/a	n/a
4	POLR2A	chr6:33757903-33758229	HUVEC	blood vessel:	n/a	n/a
5	POLR2A	chr6:33754903-33758533	HUVEC	blood vessel:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:33677680..33679812-chr6:33755384..33758328,2	MCF-7	breast:
2	chr6:33677771..33685795-chr6:33753004..33758704,10	MCF-7	breast:
3	chr6:33756927..33758602-chr6:33764987..33767346,2	MCF-7	breast:

Variant related genes	Relation type
LEMD2	TF binding region
ENSG00000137288	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10755683	0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10947436	0.95[YRI][hapmap];0.88[EUR][1000 genomes]
rs11751943	0.87[EUR][1000 genomes]
rs1318691	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1536500	0.82[EUR][1000 genomes]
rs1536501	0.91[YRI][hapmap];0.85[EUR][1000 genomes]
rs1547668	0.83[YRI][hapmap]
rs1998949	0.82[EUR][1000 genomes]
rs2182658	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2182659	0.95[YRI][hapmap];0.88[EUR][1000 genomes]
rs2395399	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs2395401	0.95[YRI][hapmap];0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2395446	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2395447	0.88[EUR][1000 genomes]
rs4711350	0.88[EUR][1000 genomes]
rs4713676	0.87[EUR][1000 genomes]
rs4713685	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs4996879	0.83[EUR][1000 genomes]
rs530614	0.91[YRI][hapmap]
rs545787	1.00[JPT][hapmap]
rs568901	0.82[JPT][hapmap]
rs602399	0.91[YRI][hapmap]
rs652049	0.91[YRI][hapmap]
rs6921772	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7449707	0.86[EUR][1000 genomes]
rs751727	0.84[YRI][hapmap];0.88[EUR][1000 genomes]
rs756138	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs756139	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7752348	0.82[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9380379	0.91[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs943464	0.83[YRI][hapmap];0.85[EUR][1000 genomes]
rs943465	1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs943472	0.95[YRI][hapmap];0.87[EUR][1000 genomes]
rs943473	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs943476	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461905	0.82[EUR][1000 genomes]
rs9461907	0.82[EUR][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	esv3436027	chr6:33754374-33758772	Active TSS Enhancers Genic enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33757000-33758800	Enhancers	Spleen	Spleen
2	chr6:33757000-33760000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:33757000-33760200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
4	chr6:33757200-33759600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:33757200-33760000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr6:33757400-33758200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr6:33757400-33758200	Enhancers	Fetal Brain Male	brain
8	chr6:33757400-33759000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr6:33757400-33759400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:33757400-33759400	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr6:33757400-33761400	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr6:33757600-33758200	Enhancers	Muscle Satellite Cultured Cells	--
13	chr6:33757600-33758200	Enhancers	HSMM	muscle
14	chr6:33757600-33758600	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr6:33757600-33758800	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr6:33757600-33758800	Weak transcription	Gastric	stomach
17	chr6:33757600-33758800	Enhancers	Osteobl	bone
18	chr6:33757600-33759000	Enhancers	H9 Cell Line	embryonic stem cell
19	chr6:33757600-33759000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr6:33757600-33759200	Weak transcription	Thymus	Thymus
21	chr6:33757600-33759400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr6:33757600-33759400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr6:33757600-33759800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
24	chr6:33757600-33759800	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr6:33757600-33760200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr6:33757600-33760800	Enhancers	iPS-15b Cell Line	embryonic stem cell
27	chr6:33757600-33761000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr6:33757600-33762400	Weak transcription	A549	lung
29	chr6:33757600-33763600	Enhancers	H1 Cell Line	embryonic stem cell
30	chr6:33757600-33775800	Weak transcription	Right Atrium	heart
31	chr6:33757800-33758400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr6:33757800-33758800	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr6:33757800-33759000	Enhancers	HSMMtube	muscle
34	chr6:33757800-33759200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr6:33757800-33759200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr6:33758000-33758200	Enhancers	ES-I3 Cell Line	embryonic stem cell
37	chr6:33758000-33758400	Weak transcription	Fetal Muscle Trunk	muscle
38	chr6:33758000-33758800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr6:33758000-33758800	Enhancers	iPS-20b Cell Line	embryonic stem cell
40	chr6:33758000-33760000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr6:33758000-33762400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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