Variant report

Variant	rs1054897
Chromosome Location	chr5:61683960-61683961
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:61683430..61685907-chr5:61688335..61689954,2	MCF-7	breast:
2	chr5:61680086..61685494-chr5:61685831..61690801,7	MCF-7	breast:
3	chr5:61671218..61675836-chr5:61680639..61684816,8	K562	blood:
4	chr5:61682102..61684562-chr5:61689312..61693081,3	K562	blood:
5	chr5:61682628..61684149-chr5:61691709..61694293,2	MCF-7	breast:
6	chr5:61680177..61684134-chr5:61684359..61686623,3	K562	blood:
7	chr5:61662871..61665721-chr5:61681464..61684214,2	K562	blood:
8	chr5:61680991..61682651-chr5:61682681..61685489,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000086189	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10062264	0.89[AFR][1000 genomes]
rs10079409	0.88[ASN][1000 genomes]
rs1025032	0.86[ASN][1000 genomes]
rs10471542	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs10939936	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10939938	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12153750	1.00[CEU][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12187566	0.91[YRI][hapmap];0.89[AFR][1000 genomes]
rs12519766	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12658256	0.85[ASN][1000 genomes]
rs12696991	0.92[AFR][1000 genomes]
rs1374009	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap]
rs153868	0.96[AFR][1000 genomes]
rs16890656	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16890852	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs1808400	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1848504	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs185055	0.81[AFR][1000 genomes]
rs2063256	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.89[ASN][1000 genomes]
rs2257389	0.95[YRI][hapmap];0.99[AFR][1000 genomes]
rs2272290	0.82[ASW][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.93[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2463078	0.82[CEU][hapmap];0.88[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs264522	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs264524	0.90[YRI][hapmap];0.87[AFR][1000 genomes]
rs264525	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs264526	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs264529	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs264532	0.87[AFR][1000 genomes]
rs28720674	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs37032	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3842912	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3857259	0.93[ASN][1000 genomes]
rs3892140	0.93[ASN][1000 genomes]
rs4700491	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4700493	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap]
rs6863617	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6864450	0.87[ASN][1000 genomes]
rs6872078	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6884054	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6895112	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap]
rs73104056	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73104058	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7729719	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7734679	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9291759	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9291762	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap]
rs9981	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024090	chr5:61258759-61921150	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	esv2757996	chr5:61403138-61687817	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	esv2759345	chr5:61403138-61748912	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv1020255	chr5:61451792-62031365	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
5	nsv1027539	chr5:61457762-62000008	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
6	nsv881727	chr5:61578041-61700970	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	23 gene(s)	inside rSNPs	diseases
7	nsv1033578	chr5:61606610-61911153	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
8	nsv1025145	chr5:61624735-61824265	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
9	nsv1029708	chr5:61625813-61877628	Bivalent/Poised TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
10	nsv881728	chr5:61630879-61857577	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
11	esv2757117	chr5:61649403-61748912	Weak transcription Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
12	nsv598348	chr5:61650843-61895124	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
13	esv35035	chr5:61657943-61792243	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:61639800-61684200	Weak transcription	Psoas Muscle	Psoas
2	chr5:61642400-61697400	Strong transcription	HUES64 Cell Line	embryonic stem cell
3	chr5:61642600-61688400	Weak transcription	Right Ventricle	heart
4	chr5:61642600-61696000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr5:61642600-61699200	Weak transcription	Gastric	stomach
6	chr5:61643000-61697000	Strong transcription	HUES48 Cell Line	embryonic stem cell
7	chr5:61644000-61689000	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr5:61645400-61689200	Strong transcription	Primary T helper cells fromperipheralblood	blood
9	chr5:61647000-61690000	Weak transcription	Spleen	Spleen
10	chr5:61647600-61698000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr5:61656200-61698000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr5:61656800-61687800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr5:61658400-61691800	Strong transcription	Dnd41	blood
14	chr5:61659800-61695800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr5:61661800-61698000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr5:61662000-61697800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr5:61662000-61697800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr5:61664600-61689200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr5:61665400-61699000	Weak transcription	Esophagus	oesophagus
20	chr5:61665600-61688000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr5:61666800-61698000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
22	chr5:61667000-61691200	Strong transcription	Primary monocytes fromperipheralblood	blood
23	chr5:61667000-61691600	Strong transcription	Monocytes-CD14+_RO01746	blood
24	chr5:61667000-61697200	Strong transcription	Primary B cells from peripheral blood	blood
25	chr5:61667400-61697200	Strong transcription	HUES6 Cell Line	embryonic stem cell
26	chr5:61667600-61697800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr5:61667600-61698000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
28	chr5:61668000-61698000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr5:61668400-61685600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr5:61668600-61697000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
31	chr5:61669200-61690200	Strong transcription	HUVEC	blood vessel
32	chr5:61669400-61685800	Strong transcription	Primary T helper naive cells from peripheral blood	blood
33	chr5:61669400-61690800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr5:61669600-61685000	Strong transcription	Fetal Brain Female	brain
35	chr5:61669600-61687600	Strong transcription	Primary T helper cells PMA-I stimulated	--
36	chr5:61670000-61697200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr5:61670800-61690000	Weak transcription	Aorta	Aorta
38	chr5:61672000-61698600	Weak transcription	Stomach Mucosa	stomach
39	chr5:61675000-61697800	Weak transcription	Small Intestine	intestine
40	chr5:61676000-61684800	Strong transcription	K562	blood
41	chr5:61676800-61689000	Weak transcription	Ovary	ovary
42	chr5:61676800-61697800	Weak transcription	Right Atrium	heart
43	chr5:61676800-61699000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr5:61677000-61685800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr5:61677000-61689400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr5:61677800-61684000	Weak transcription	Placenta Amnion	Placenta Amnion
47	chr5:61677800-61685000	Weak transcription	Pancreas	Pancrea
48	chr5:61679000-61687000	Strong transcription	H1 Cell Line	embryonic stem cell
49	chr5:61679200-61691000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr5:61679400-61690000	Weak transcription	Lung	lung

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