Variant report

Variant	rs2489956
Chromosome Location	chr6:161315347-161315348
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:161315007..161317430-chr6:161326001..161327653,2	K562	blood:

Variant related genes	Relation type
ENSG00000220913	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11970528	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1247298	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs1247299	0.93[CEU][hapmap];0.87[CHB][hapmap];0.94[JPT][hapmap];0.88[EUR][1000 genomes]
rs1247305	0.81[ASN][1000 genomes]
rs1247307	0.80[ASN][1000 genomes]
rs1247308	0.93[JPT][hapmap]
rs1247309	0.86[CHB][hapmap];0.94[JPT][hapmap];0.80[ASN][1000 genomes]
rs1247310	0.81[ASN][1000 genomes]
rs1247312	0.80[ASN][1000 genomes]
rs1247313	0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs1247316	0.81[ASN][1000 genomes]
rs1247317	0.81[ASN][1000 genomes]
rs1247318	0.81[ASN][1000 genomes]
rs1247319	0.81[ASN][1000 genomes]
rs1247320	0.81[ASN][1000 genomes]
rs1247321	0.81[ASN][1000 genomes]
rs1247322	0.86[CHB][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs1247323	0.87[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs1247325	0.87[CHB][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs1247326	0.88[ASN][1000 genomes]
rs1247327	0.86[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs1247328	0.90[ASN][1000 genomes]
rs1247329	0.89[ASN][1000 genomes]
rs1247330	0.86[CHB][hapmap];0.80[JPT][hapmap];0.86[ASN][1000 genomes]
rs1247360	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs1247361	0.87[CHB][hapmap];0.94[JPT][hapmap]
rs1247363	0.86[CHB][hapmap];0.93[JPT][hapmap]
rs1937474	0.98[ASN][1000 genomes]
rs1937476	0.88[EUR][1000 genomes]
rs2465834	0.87[JPT][hapmap]
rs2465869	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2465870	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2465871	0.94[ASN][1000 genomes]
rs2465876	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2465877	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2465878	0.95[ASN][1000 genomes]
rs2489955	0.93[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2489962	0.85[ASN][1000 genomes]
rs935183	0.81[ASN][1000 genomes]
rs9355851	0.97[ASN][1000 genomes]
rs9364580	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3352911	chr6:161140543-161324358	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv830853	chr6:161180005-161376481	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv2422347	chr6:161211171-161442377	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	esv1837673	chr6:161216608-161318009	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161302800-161316600	Weak transcription	Ovary	ovary
2	chr6:161310800-161315800	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr6:161310800-161316400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr6:161311000-161316400	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr6:161311000-161320600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr6:161311000-161321000	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr6:161313000-161316200	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr6:161313000-161321000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr6:161313200-161319000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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