Variant report

Variant	rs11725172
Chromosome Location	chr4:54203701-54203702
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10014030	0.84[EUR][1000 genomes]
rs11133258	0.80[EUR][1000 genomes]
rs11721940	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs11724062	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11724781	0.84[CEU][hapmap];0.80[EUR][1000 genomes]
rs11933772	0.84[CEU][hapmap]
rs12649340	0.82[AMR][1000 genomes]
rs12649948	0.83[AMR][1000 genomes]
rs13130337	0.89[ASW][hapmap];0.95[CHB][hapmap];0.89[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.82[YRI][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1383981	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.90[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17654608	0.84[CEU][hapmap]
rs17705869	0.84[CEU][hapmap]
rs1842658	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2200051	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2412404	0.95[CHB][hapmap];0.95[CHD][hapmap];0.86[JPT][hapmap];0.96[MEX][hapmap];0.84[TSI][hapmap]
rs28832663	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34426398	0.86[EUR][1000 genomes]
rs4328970	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4571396	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs4588514	0.95[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];0.82[JPT][hapmap];0.96[MEX][hapmap];0.84[TSI][hapmap]
rs4864749	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.97[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4864752	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6554071	0.95[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];0.86[JPT][hapmap];0.96[MEX][hapmap];0.84[TSI][hapmap]
rs6554091	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.90[TSI][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6554092	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6554093	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.84[YRI][hapmap];0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6813560	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6821113	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6852852	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6856562	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6857744	0.81[EUR][1000 genomes]
rs751266	0.88[CEU][hapmap]
rs7672997	0.80[MEX][hapmap]
rs7683984	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.96[MKK][hapmap];0.92[TSI][hapmap];0.88[YRI][hapmap];0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs900110	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9990771	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9991945	0.85[EUR][1000 genomes]
rs9998376	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]

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	nsv1008593	chr4:54120297-54207769	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54169800-54216200	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr4:54170600-54230600	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr4:54172600-54215400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr4:54174200-54212600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr4:54180000-54212800	Weak transcription	Primary B cells from cord blood	blood
6	chr4:54187800-54212800	Weak transcription	Dnd41	blood
7	chr4:54188200-54213800	Weak transcription	Right Ventricle	heart
8	chr4:54188200-54218200	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr4:54188200-54231200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr4:54188400-54205600	Weak transcription	Fetal Intestine Small	intestine
11	chr4:54188400-54212800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr4:54188600-54215400	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr4:54189600-54212800	Weak transcription	Osteobl	bone
14	chr4:54189800-54206400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr4:54190000-54213800	Weak transcription	HUVEC	blood vessel
16	chr4:54192200-54212600	Weak transcription	NHDF-Ad	bronchial
17	chr4:54192200-54212800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr4:54193800-54203800	Weak transcription	GM12878-XiMat	blood
19	chr4:54193800-54206200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr4:54193800-54212600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr4:54193800-54213400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr4:54194200-54204800	Weak transcription	Primary hematopoietic stem cells	blood
23	chr4:54201200-54220000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr4:54201400-54215600	Weak transcription	Primary T cells fromperipheralblood	blood
25	chr4:54201600-54213000	Weak transcription	K562	blood
26	chr4:54201800-54215800	Weak transcription	Primary B cells from peripheral blood	blood
27	chr4:54202000-54212800	Weak transcription	Primary T helper cells fromperipheralblood	blood
28	chr4:54202200-54226000	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr4:54202600-54213000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr4:54203400-54213000	Weak transcription	Primary T cells from cord blood	blood
31	chr4:54203600-54203800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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