Variant report

Variant	rs1565366
Chromosome Location	chr6:34031683-34031684
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	CEBPB	chr6:34031517-34031699	H1-hESC	embryonic stem cell:	n/a	n/a
2	CEBPB	chr6:34031556-34031751	A549	lung:	n/a	n/a
3	CEBPB	chr6:34031470-34031715	HepG2	liver:	n/a	n/a
4	CTCF	chr6:34031540-34031690	WERI-Rb-1	eye:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:34023728..34025864-chr6:34029998..34032056,2	MCF-7	breast:
2	chr6:34031493..34033203-chr6:34059126..34061198,2	MCF-7	breast:

Variant related genes	Relation type
GRM4	TF binding region
ENSG00000124493	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs12663035	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12664932	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1565365	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1873250	0.81[EUR][1000 genomes]
rs1873254	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2395554	0.82[EUR][1000 genomes]
rs2451358	0.80[EUR][1000 genomes]
rs3734361	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4711374	0.93[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4713735	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4713736	0.82[EUR][1000 genomes]
rs6922166	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7772059	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7775780	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9366836	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9366837	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9368791	0.84[CHB][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9461949	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9469690	0.85[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9469691	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9469693	0.93[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.90[AFR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9469694	0.90[AFR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9469697	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[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	nsv916210	chr6:33804111-34144062	Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	32 gene(s)	inside rSNPs	diseases
2	nsv462900	chr6:33932442-34195011	Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
3	nsv602843	chr6:33932442-34195011	Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
4	nsv462901	chr6:33953646-34050917	ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
5	nsv602861	chr6:33953646-34050917	Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
6	nsv432881	chr6:34026522-34213822	Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34024000-34036000	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr6:34025000-34036000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:34025000-34101800	Weak transcription	Right Atrium	heart
4	chr6:34025200-34035800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:34025200-34036000	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr6:34025200-34039600	Weak transcription	Gastric	stomach
7	chr6:34027400-34066400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr6:34029600-34032000	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr6:34030600-34033600	Bivalent Enhancer	Fetal Stomach	stomach
10	chr6:34030800-34031800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
11	chr6:34031000-34034200	Enhancers	Fetal Brain Male	brain
12	chr6:34031400-34031800	Bivalent Enhancer	Fetal Muscle Leg	muscle
13	chr6:34031400-34033800	Enhancers	Fetal Brain Female	brain

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