Variant report

Variant	rs2489957
Chromosome Location	chr6:161316128-161316129
allele	A/G
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: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs1247293	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1247295	0.82[ASN][1000 genomes]
rs1247297	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1247301	0.91[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap];0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1247303	0.91[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1247311	0.82[CHB][hapmap]
rs1247348	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1247349	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1247351	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1247352	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1247354	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1247355	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1247356	0.82[CEU][hapmap];0.86[YRI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1247359	0.81[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs1937467	0.90[ASN][1000 genomes]
rs1937475	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2248982	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2465845	0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2489959	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs935184	0.82[ASN][1000 genomes]
rs9365233	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[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:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161302800-161316600	Weak transcription	Ovary	ovary
2	chr6:161310800-161316400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr6:161311000-161316400	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr6:161311000-161320600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr6:161311000-161321000	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr6:161313000-161316200	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr6:161313000-161321000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr6:161313200-161319000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr6:161315600-161316800	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr6:161315800-161316800	Enhancers	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links