Variant report

Variant	rs10031441
Chromosome Location	chr4:74314649-74314650
allele	C/T
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	FOXA1	chr4:74314387-74314927	HepG2	liver:	n/a	n/a
2	MYBL2	chr4:74310188-74314988	HepG2	liver:	n/a	n/a
3	HEY1	chr4:74314108-74314935	HepG2	liver:	n/a	n/a
4	FOXA1	chr4:74314418-74314818	HepG2	liver:	n/a	n/a
5	POLR2A	chr4:74314256-74315446	HepG2	liver:	n/a	n/a
6	POLR2A	chr4:74302367-74315627	HepG2	liver:	n/a	n/a
7	HEY1	chr4:74309966-74315656	HepG2	liver:	n/a	n/a
8	POLR2A	chr4:74307189-74315598	HepG2	liver:	n/a	n/a
9	TEAD4	chr4:74313036-74315349	HepG2	liver:	n/a	n/a
10	POLR2A	chr4:74313129-74315567	HepG2	liver:	n/a	n/a
11	POLR2A	chr4:74314276-74315422	HepG2	liver:	n/a	n/a
12	FOXA1	chr4:74314501-74314803	HepG2	liver:	n/a	n/a
13	MBD4	chr4:74312922-74319740	HepG2	liver:	n/a	n/a
14	NFIC	chr4:74314409-74315238	HepG2	liver:	n/a	n/a
15	FOXA2	chr4:74314500-74314794	HepG2	liver:	n/a	n/a
16	MBD4	chr4:74307189-74325400	HepG2	liver:	n/a	n/a
17	POLR2A	chr4:74307214-74325260	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
AFP	TF binding region

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10001225	0.86[ASN][1000 genomes]
rs10002756	0.88[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.93[LWK][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10020432	0.94[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10022167	0.83[ASW][hapmap];0.92[CEU][hapmap];0.87[TSI][hapmap]
rs12504308	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12506899	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12510174	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12649712	0.96[CEU][hapmap]
rs13114289	0.80[EUR][1000 genomes]
rs13138734	0.89[CEU][hapmap]
rs13150293	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1475934	0.96[CEU][hapmap]
rs16849341	0.92[CEU][hapmap]
rs16849384	1.00[CEU][hapmap];0.81[JPT][hapmap];0.98[TSI][hapmap];0.92[EUR][1000 genomes]
rs2051512	0.96[CEU][hapmap];0.89[TSI][hapmap]
rs2070849	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs2276937	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs2298839	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.91[LWK][hapmap];0.94[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28532518	0.81[EUR][1000 genomes]
rs3756066	0.89[ASW][hapmap];0.92[CEU][hapmap];0.89[TSI][hapmap]
rs3775485	0.92[CEU][hapmap]
rs3775486	0.96[CEU][hapmap];0.80[EUR][1000 genomes]
rs3796676	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs3796677	0.81[EUR][1000 genomes]
rs3796678	0.81[EUR][1000 genomes]
rs3822100	1.00[JPT][hapmap]
rs4018	0.83[ASW][hapmap];0.96[CEU][hapmap];0.84[GIH][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs4024	0.83[ASW][hapmap];0.96[CEU][hapmap];0.84[GIH][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs4403016	0.96[CEU][hapmap]
rs4446279	1.00[JPT][hapmap]
rs4513532	0.92[CEU][hapmap]
rs4575963	0.92[CEU][hapmap]
rs4640638	1.00[JPT][hapmap]
rs4694613	0.92[CEU][hapmap]
rs6446931	0.92[CEU][hapmap]
rs6820167	0.88[CEU][hapmap]
rs6834059	1.00[JPT][hapmap]
rs6850155	0.89[CEU][hapmap]
rs6853164	0.88[CEU][hapmap]
rs714825	0.92[CEU][hapmap];0.89[TSI][hapmap]
rs737241	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7660680	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7668327	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7688274	0.89[ASW][hapmap];0.92[CEU][hapmap];0.89[TSI][hapmap]
rs9996318	0.92[CEU][hapmap];0.87[TSI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3430875	chr4:74243646-74420354	Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:74303400-74317200	Weak transcription	Fetal Intestine Large	intestine
2	chr4:74303600-74315800	Weak transcription	Fetal Intestine Small	intestine
3	chr4:74309600-74315400	Genic enhancers	HepG2	liver
4	chr4:74310000-74315200	Enhancers	Liver	Liver
5	chr4:74311000-74316000	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr4:74311400-74316400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr4:74312200-74314800	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr4:74313400-74316400	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr4:74313600-74315600	Weak transcription	NHDF-Ad	bronchial
10	chr4:74313600-74315600	Weak transcription	Osteobl	bone
11	chr4:74313600-74315800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr4:74313600-74315800	Weak transcription	NHLF	lung
13	chr4:74313800-74315000	Weak transcription	NH-A	brain
14	chr4:74314000-74315000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr4:74314000-74315000	Weak transcription	NHEK	skin
16	chr4:74314000-74315200	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr4:74314000-74315600	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr4:74314000-74316000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr4:74314400-74315800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr4:74314400-74317400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr4:74314600-74315800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr4:74314600-74317000	Enhancers	HUES48 Cell Line	embryonic stem cell

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