Variant report

Variant	rs2560809
Chromosome Location	chr6:13495617-13495618
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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr6:13494194..13498063-chr6:13500323..13502186,3	K562	blood:
2	chr6:13494551..13497171-chr6:13614158..13616088,2	MCF-7	breast:
3	chr6:13483604..13490047-chr6:13490051..13499001,13	K562	blood:
4	chr6:13491461..13493545-chr6:13494855..13497740,2	K562	blood:
5	chr6:13464385..13467011-chr6:13494544..13496840,2	MCF-7	breast:
6	chr6:13495546..13497355-chr6:13501574..13503680,2	MCF-7	breast:
7	chr6:13484690..13488441-chr6:13493380..13497867,6	MCF-7	breast:
8	chr6:13489026..13490564-chr6:13494155..13495687,2	K562	blood:
9	chr6:13483604..13488920-chr6:13494786..13499283,6	K562	blood:
10	chr6:13495505..13498857-chr6:13499271..13502154,4	K562	blood:
11	chr6:13477336..13479814-chr6:13494111..13495894,2	MCF-7	breast:
12	chr6:13491132..13493545-chr6:13494855..13497448,2	K562	blood:
13	chr6:13493859..13496685-chr6:13512133..13514978,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000145990	Chromatin interaction
ENSG00000261071	Chromatin interaction
ENSG00000187461	Chromatin interaction
ENSG00000225921	Chromatin interaction
ENSG00000237786	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10948735	0.81[AFR][1000 genomes]
rs2560785	0.91[AFR][1000 genomes]
rs2560788	0.89[AFR][1000 genomes]
rs2560795	0.91[AFR][1000 genomes]
rs2560807	0.87[AFR][1000 genomes]
rs2560808	0.91[AFR][1000 genomes]
rs2560813	0.84[YRI][hapmap];0.81[AFR][1000 genomes]
rs2841534	0.89[AFR][1000 genomes]
rs2841546	0.95[AFR][1000 genomes]
rs2841550	0.84[YRI][hapmap];0.81[AFR][1000 genomes]
rs2841552	0.83[AFR][1000 genomes]
rs9370139	0.81[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532021	chr6:13232627-13805381	Active TSS Genic enhancers Strong transcription Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
2	nsv1033620	chr6:13419730-13571788	Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv462640	chr6:13426539-13519434	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv600994	chr6:13426539-13519434	Bivalent/Poised TSS Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv470802	chr6:13441424-13519371	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 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	chr6:13489200-13496600	Weak transcription	Spleen	Spleen
2	chr6:13489200-13496600	Weak transcription	GM12878-XiMat	blood
3	chr6:13492200-13496400	Weak transcription	Primary neutrophils fromperipheralblood	blood
4	chr6:13494200-13496800	Enhancers	Fetal Heart	heart
5	chr6:13494400-13496600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr6:13494400-13496600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr6:13494600-13495800	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr6:13494600-13495800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr6:13494600-13496000	Weak transcription	HepG2	liver
10	chr6:13494600-13496200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr6:13494600-13496200	Weak transcription	Adipose Nuclei	Adipose
12	chr6:13494600-13496400	Weak transcription	Right Atrium	heart
13	chr6:13494600-13496600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr6:13494600-13496600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:13494600-13496600	Weak transcription	HSMM	muscle
16	chr6:13494600-13499400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr6:13494800-13496600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr6:13494800-13496600	Weak transcription	HSMMtube	muscle
19	chr6:13495200-13497000	Enhancers	H9 Cell Line	embryonic stem cell
20	chr6:13495200-13497000	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr6:13495400-13496800	Enhancers	iPS-15b Cell Line	embryonic stem cell
22	chr6:13495400-13496800	Enhancers	Skeletal Muscle Male	skeletal muscle
23	chr6:13495400-13496800	Enhancers	Skeletal Muscle Female	skeletal muscle
24	chr6:13495400-13497600	Enhancers	HUES64 Cell Line	embryonic stem cell
25	chr6:13495600-13496800	Enhancers	Left Ventricle	heart
26	chr6:13495600-13496800	Enhancers	Right Ventricle	heart
27	chr6:13495600-13497000	Enhancers	H1 Cell Line	embryonic stem cell
28	chr6:13495600-13497400	Enhancers	iPS-18 Cell Line	embryonic stem cell
29	chr6:13495600-13497400	Enhancers	iPS-20b Cell Line	embryonic stem cell
30	chr6:13495600-13498000	Enhancers	ES-I3 Cell Line	embryonic stem cell

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