Variant report

Variant	rs16850941
Chromosome Location	chr4:75191983-75191984
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	POLR2A	chr4:75176225-75192444	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr4:75189693..75192750-chr4:75229705..75235376,6	K562	blood:
2	chr4:75190057..75192592-chr4:75257362..75259075,2	K562	blood:
3	chr4:75021640..75024587-chr4:75190198..75192467,2	K562	blood:

Variant related genes	Relation type
ENSG00000265720	TF binding region
ENSG00000163738	Chromatin interaction
ENSG00000124882	Chromatin interaction
ENSG00000269559	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10010575	0.84[CEU][hapmap];0.91[EUR][1000 genomes]
rs10013212	0.84[EUR][1000 genomes]
rs10018373	0.83[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs10019396	0.84[EUR][1000 genomes]
rs10023519	0.88[CEU][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs10026687	0.89[CEU][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs1037824	0.81[EUR][1000 genomes]
rs10938112	0.84[EUR][1000 genomes]
rs11942725	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1246594	0.84[CEU][hapmap];1.00[JPT][hapmap]
rs16850883	0.81[EUR][1000 genomes]
rs17232394	0.88[EUR][1000 genomes]
rs17829765	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2045616	0.81[EUR][1000 genomes]
rs2045617	0.81[EUR][1000 genomes]
rs28378517	0.86[EUR][1000 genomes]
rs28436705	0.82[EUR][1000 genomes]
rs4502653	0.88[EUR][1000 genomes]
rs58813617	0.89[EUR][1000 genomes]
rs62312545	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6814880	0.81[EUR][1000 genomes]
rs6820992	0.81[EUR][1000 genomes]
rs6821664	0.88[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs6835734	0.81[EUR][1000 genomes]
rs6854723	0.88[CEU][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs715844	0.90[EUR][1000 genomes]
rs7663269	0.87[EUR][1000 genomes]
rs7670535	0.87[EUR][1000 genomes]
rs7680463	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9997322	0.88[CEU][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9997788	0.84[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525980	chr4:74731526-75382209	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv1009099	chr4:75089233-75726206	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 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	chr4:75186000-75192000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr4:75187000-75192800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr4:75187600-75192400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr4:75187600-75192600	Weak transcription	NHEK	skin
5	chr4:75187600-75192800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr4:75187600-75192800	Weak transcription	HMEC	breast
7	chr4:75191600-75192600	Active TSS	K562	blood
8	chr4:75191800-75192600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr4:75191800-75192800	Active TSS	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links