Variant report

Variant	rs464888
Chromosome Location	chr5:53480398-53480399
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10051537	0.94[CHB][hapmap];0.96[YRI][hapmap];0.81[ASN][1000 genomes]
rs10076217	0.86[ASN][1000 genomes]
rs1345815	0.93[CHB][hapmap];0.88[JPT][hapmap];0.95[YRI][hapmap];0.86[ASN][1000 genomes]
rs154020	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs154041	0.81[EUR][1000 genomes]
rs156825	0.94[CEU][hapmap]
rs156830	0.93[CHB][hapmap]
rs157069	0.81[EUR][1000 genomes]
rs157073	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16882414	0.93[CHB][hapmap];0.95[YRI][hapmap]
rs16882451	0.87[CHB][hapmap];0.82[JPT][hapmap]
rs202168	0.94[CEU][hapmap];0.93[CHB][hapmap]
rs2407404	0.88[CEU][hapmap];0.94[CHB][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs244643	0.87[CHB][hapmap];0.81[EUR][1000 genomes]
rs253888	0.83[YRI][hapmap]
rs2547538	0.81[CHB][hapmap]
rs25853	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs26608	0.93[CHB][hapmap]
rs26609	0.94[CEU][hapmap];0.93[CHB][hapmap]
rs26775	0.94[CEU][hapmap];0.93[CHB][hapmap];0.87[YRI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs26776	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs277320	0.81[EUR][1000 genomes]
rs277321	0.81[EUR][1000 genomes]
rs277323	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs277325	0.81[EUR][1000 genomes]
rs277327	0.81[EUR][1000 genomes]
rs277328	0.81[EUR][1000 genomes]
rs277329	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[EUR][1000 genomes]
rs277330	1.00[CEU][hapmap];0.87[CHB][hapmap];0.81[EUR][1000 genomes]
rs27776	0.94[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs278065	0.94[CEU][hapmap];0.93[CHB][hapmap];0.81[EUR][1000 genomes]
rs278066	0.81[EUR][1000 genomes]
rs27897	0.94[CEU][hapmap];0.87[CHB][hapmap];0.81[EUR][1000 genomes]
rs279743	0.87[CHB][hapmap]
rs279744	0.87[CHB][hapmap]
rs28033	0.87[CHB][hapmap];0.88[JPT][hapmap];0.91[ASN][1000 genomes]
rs35006	0.81[CHB][hapmap]
rs3797254	0.87[CHB][hapmap]
rs3797255	0.93[CHB][hapmap];0.80[ASN][1000 genomes]
rs3843452	0.81[CHB][hapmap];0.96[YRI][hapmap]
rs4865807	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4865808	0.81[CHB][hapmap];0.84[JPT][hapmap]
rs4865809	0.87[CHB][hapmap];0.82[JPT][hapmap];0.96[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs682103	0.87[CHB][hapmap]
rs6866862	0.87[CEU][hapmap];1.00[CHB][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6866870	0.94[CHB][hapmap];0.96[YRI][hapmap];0.80[ASN][1000 genomes]
rs700911	0.81[EUR][1000 genomes]
rs700915	0.94[CEU][hapmap];0.87[CHB][hapmap]
rs981713	0.81[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032632	chr5:52667145-53655624	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv880713	chr5:53198059-53906103	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv881265	chr5:53305742-53504764	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
4	nsv880619	chr5:53305742-53525671	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
5	nsv881616	chr5:53305742-53639975	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
6	nsv881018	chr5:53305742-53744849	Flanking Active TSS ZNF genes & repeats Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
7	nsv880734	chr5:53305742-53770217	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats 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 miRNA	12 gene(s)	inside rSNPs	diseases
8	nsv881161	chr5:53305742-53815495	Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
9	nsv881600	chr5:53305742-53823285	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
10	nsv598176	chr5:53311502-53739530	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
11	nsv880773	chr5:53311918-53815495	Weak transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
12	nsv1024303	chr5:53317896-53788276	Flanking Bivalent TSS/Enh Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
13	nsv1029224	chr5:53317896-53812899	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
14	nsv949098	chr5:53317990-53816782	Active TSS Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
15	nsv1020517	chr5:53324930-53759046	Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
16	nsv1017768	chr5:53326385-53752165	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
17	nsv1032352	chr5:53327170-53762973	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
18	nsv598177	chr5:53333477-53755208	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
19	nsv881056	chr5:53368869-53744849	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
20	nsv881408	chr5:53386267-53815495	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:53433000-53480800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr5:53456000-53483000	Weak transcription	Right Ventricle	heart
3	chr5:53466400-53484000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr5:53466800-53489000	Weak transcription	K562	blood
5	chr5:53467200-53483200	Weak transcription	Primary T cells from cord blood	blood
6	chr5:53469800-53482000	Weak transcription	Psoas Muscle	Psoas
7	chr5:53474000-53481600	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr5:53474200-53490800	Weak transcription	Rectal Smooth Muscle	rectum
9	chr5:53474400-53480600	Weak transcription	Small Intestine	intestine
10	chr5:53475200-53480600	Weak transcription	Left Ventricle	heart
11	chr5:53475200-53480600	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr5:53475400-53489000	Weak transcription	Right Atrium	heart
13	chr5:53475600-53480600	Weak transcription	Fetal Heart	heart
14	chr5:53476800-53480600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr5:53476800-53480600	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr5:53476800-53482000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr5:53476800-53482200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr5:53477000-53482000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr5:53477000-53490000	Weak transcription	Fetal Lung	lung
20	chr5:53477400-53480600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr5:53477400-53482000	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr5:53477400-53482000	Weak transcription	Colon Smooth Muscle	Colon
23	chr5:53477400-53482200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr5:53477400-53483000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr5:53477600-53482400	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr5:53477600-53483000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr5:53480200-53481600	Enhancers	Duodenum Mucosa	Duodenum
28	chr5:53480200-53482200	Enhancers	Fetal Intestine Small	intestine
29	chr5:53480200-53482400	Enhancers	Fetal Intestine Large	intestine

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