Variant report

Variant	rs4345256
Chromosome Location	chr4:143384634-143384635
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	SIN3AK20	chr4:143384072-143384770	MCF-7	breast:	n/a	n/a
2	POLR2A	chr4:143384091-143384668	MCF-7	breast:	n/a	n/a
3	EP300	chr4:143384425-143384655	SK-N-SH_RA	brain:	n/a	n/a
4	GATA3	chr4:143384164-143384655	MCF-7	breast:	n/a	n/a
5	EP300	chr4:143384415-143384673	SK-N-SH_RA	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:143327412..143330052-chr4:143383937..143385936,2	MCF-7	breast:

Variant related genes	Relation type
INPP4B	TF binding region

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10012476	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10015184	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10015271	0.89[EUR][1000 genomes]
rs1013397	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.82[YRI][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12642500	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12643136	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12644565	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12646243	0.87[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12649139	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1364917	0.87[CEU][hapmap];0.91[CHB][hapmap];0.96[JPT][hapmap];0.81[ASN][1000 genomes]
rs1364918	0.87[CEU][hapmap];0.81[ASN][1000 genomes]
rs1364919	0.87[CEU][hapmap];0.82[YRI][hapmap];0.80[AMR][1000 genomes]
rs1364920	0.87[CEU][hapmap];0.83[AMR][1000 genomes]
rs1364926	0.87[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1425534	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1425535	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1425536	0.81[JPT][hapmap]
rs1425538	0.87[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1603584	0.86[ASN][1000 genomes]
rs17016170	1.00[CEU][hapmap];0.91[CHB][hapmap];0.96[JPT][hapmap];0.83[YRI][hapmap];0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17016195	0.91[EUR][1000 genomes]
rs17016207	0.87[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs17016248	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17016284	0.83[AMR][1000 genomes]
rs17016304	0.87[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[YRI][hapmap];0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs17016306	0.82[JPT][hapmap]
rs2042644	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2113997	0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs2162108	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2322705	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2322706	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2322796	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28510314	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs28823374	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28850298	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28861843	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34900920	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3913164	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs3913165	0.91[EUR][1000 genomes]
rs57724540	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs59784151	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs60004938	0.80[AMR][1000 genomes]
rs6822263	0.85[CEU][hapmap]
rs6823362	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7662794	0.91[EUR][1000 genomes]
rs7668133	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7672965	0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs7695918	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs7699408	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9308152	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.82[YRI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs931637	0.85[CEU][hapmap];0.87[JPT][hapmap];0.84[ASN][1000 genomes]
rs979511	1.00[CEU][hapmap]
rs9986090	1.00[CEU][hapmap];0.89[CHB][hapmap];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9998089	0.85[AMR][1000 genomes];0.88[ASN][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	nsv498005	chr4:142515689-143502988	Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv830100	chr4:143216951-143393305	Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 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	chr4:143367000-143392600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:143369200-143410600	Weak transcription	Primary hematopoietic stem cells	blood
3	chr4:143371600-143400800	Weak transcription	Aorta	Aorta
4	chr4:143380400-143390400	Weak transcription	Esophagus	oesophagus
5	chr4:143380400-143394800	Weak transcription	Pancreas	Pancrea
6	chr4:143383800-143384800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr4:143384200-143384800	Enhancers	Duodenum Mucosa	Duodenum
8	chr4:143384600-143384800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr4:143384600-143394800	Weak transcription	Fetal Intestine Small	intestine

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