Variant report

Variant	rs2841546
Chromosome Location	chr6:13494543-13494544
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:13494194..13498063-chr6:13500323..13502186,3	K562	blood:
2	chr6:13483604..13490047-chr6:13490051..13499001,13	K562	blood:
3	chr6:13484690..13488441-chr6:13493380..13497867,6	MCF-7	breast:
4	chr6:13489026..13490564-chr6:13494155..13495687,2	K562	blood:
5	chr6:13477336..13479814-chr6:13494111..13495894,2	MCF-7	breast:
6	chr6:13493859..13496685-chr6:13512133..13514978,2	K562	blood:

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

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs2560785	0.86[AFR][1000 genomes]
rs2560788	0.84[AFR][1000 genomes]
rs2560795	0.86[AFR][1000 genomes]
rs2560807	0.83[AFR][1000 genomes]
rs2560808	0.86[AFR][1000 genomes]
rs2560809	0.95[AFR][1000 genomes]
rs2841529	0.84[AFR][1000 genomes]
rs2841534	0.84[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:28 , 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	chr6:13489400-13495600	Weak transcription	Left Ventricle	heart
4	chr6:13489600-13495600	Weak transcription	Right Ventricle	heart
5	chr6:13492200-13496400	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr6:13493800-13494600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:13493800-13494600	Enhancers	Adipose Nuclei	Adipose
8	chr6:13493800-13494600	Enhancers	Right Atrium	heart
9	chr6:13493800-13494800	Enhancers	H9 Cell Line	embryonic stem cell
10	chr6:13493800-13494800	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr6:13494000-13494600	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr6:13494000-13494600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr6:13494000-13494600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:13494000-13494600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr6:13494200-13494600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr6:13494200-13494600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr6:13494200-13494600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr6:13494200-13494600	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr6:13494200-13494600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr6:13494200-13494600	Enhancers	HepG2	liver
21	chr6:13494200-13494600	Enhancers	HSMM	muscle
22	chr6:13494200-13496800	Enhancers	Fetal Heart	heart
23	chr6:13494400-13494600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
24	chr6:13494400-13494600	Enhancers	HUES48 Cell Line	embryonic stem cell
25	chr6:13494400-13494800	Enhancers	HSMMtube	muscle
26	chr6:13494400-13495600	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr6:13494400-13496600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr6:13494400-13496600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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