Variant report

Variant	rs274301
Chromosome Location	chr10:25248540-25248541
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:25011850..25014500-chr10:25246674..25248679,2	MCF-7	breast:
2	chr10:25146602..25148894-chr10:25247963..25249557,2	K562	blood:
3	chr10:25245687..25248875-chr10:25261943..25265245,3	MCF-7	breast:
4	chr10:25245793..25250014-chr10:25304011..25307329,4	MCF-7	breast:
5	chr10:25247885..25251535-chr10:25304121..25307402,5	K562	blood:
6	chr10:25246877..25249016-chr10:25275912..25277898,2	K562	blood:
7	chr10:25247331..25249191-chr10:25250892..25252759,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000151023	Chromatin interaction
ENSG00000185875	Chromatin interaction
ENSG00000107863	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1000875	0.96[CHB][hapmap]
rs10508685	0.96[CHB][hapmap]
rs10508686	0.95[CHB][hapmap]
rs10741072	0.83[JPT][hapmap]
rs10764515	0.92[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10764518	0.96[CHB][hapmap]
rs10764519	0.95[CHB][hapmap]
rs10828741	0.95[CHB][hapmap]
rs10828745	0.95[CHB][hapmap]
rs11014318	0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs11014320	0.83[ASN][1000 genomes]
rs11014357	0.95[CHB][hapmap]
rs12249889	0.95[CHB][hapmap]
rs12256642	0.95[CHB][hapmap]
rs12761282	0.92[ASN][1000 genomes]
rs12784769	0.82[CEU][hapmap];1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs1492608	0.95[CHB][hapmap]
rs1546097	0.95[CHB][hapmap]
rs166670	0.80[EUR][1000 genomes]
rs185669	0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs200730	0.87[ASN][1000 genomes]
rs2031600	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2035888	0.87[JPT][hapmap];0.83[ASN][1000 genomes]
rs2131276	0.96[CHB][hapmap]
rs2279547	0.92[CEU][hapmap];0.96[CHB][hapmap];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2291583	0.91[CHB][hapmap]
rs2307047	0.85[CEU][hapmap];0.87[CHB][hapmap]
rs2478091	0.87[ASN][1000 genomes]
rs274288	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs274289	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs274290	0.88[ASN][1000 genomes]
rs274291	0.83[ASN][1000 genomes]
rs274292	0.83[ASN][1000 genomes]
rs274293	0.80[EUR][1000 genomes]
rs274294	0.80[EUR][1000 genomes]
rs274303	0.84[ASN][1000 genomes]
rs274304	0.89[CEU][hapmap];0.84[ASN][1000 genomes]
rs274305	0.84[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs274306	0.84[ASN][1000 genomes]
rs274307	0.94[ASN][1000 genomes]
rs274308	0.84[ASN][1000 genomes]
rs274309	0.84[ASN][1000 genomes]
rs274310	0.94[ASN][1000 genomes]
rs274311	0.84[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs274312	0.84[ASN][1000 genomes]
rs274313	0.87[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs274316	0.85[CEU][hapmap];0.87[JPT][hapmap];0.89[ASN][1000 genomes]
rs2818289	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3000491	0.86[ASN][1000 genomes]
rs3748223	0.83[JPT][hapmap]
rs4345864	0.96[CHB][hapmap]
rs4748993	0.91[CHB][hapmap]
rs4748996	0.95[CHB][hapmap]
rs612482	0.86[ASN][1000 genomes]
rs6482467	0.96[CHB][hapmap]
rs6482468	0.81[CEU][hapmap];0.84[CHB][hapmap]
rs7086282	0.95[CHB][hapmap]
rs7393543	0.95[CHB][hapmap]
rs7913853	0.96[CHB][hapmap]
rs902903	0.81[CEU][hapmap];0.83[CHB][hapmap]
rs902904	0.95[CHB][hapmap]
rs902905	0.96[CHB][hapmap]
rs987274	0.96[CHB][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	nsv1053278	chr10:25140776-25269093	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25242400-25251400	Weak transcription	Liver	Liver
2	chr10:25242400-25252800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr10:25242600-25249000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr10:25242800-25251400	Weak transcription	Fetal Intestine Large	intestine
5	chr10:25242800-25251600	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr10:25243000-25251400	Weak transcription	Fetal Intestine Small	intestine
7	chr10:25245600-25248600	Enhancers	Hela-S3	cervix
8	chr10:25245800-25248600	Enhancers	Breast Myoepithelial Primary Cells	Breast
9	chr10:25246400-25248600	Enhancers	Fetal Stomach	stomach
10	chr10:25246400-25248600	Enhancers	HSMM	muscle
11	chr10:25247000-25249200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr10:25247200-25248600	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr10:25247400-25248600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr10:25247400-25248600	Enhancers	Duodenum Smooth Muscle	Duodenum
15	chr10:25247400-25249800	Enhancers	Fetal Muscle Leg	muscle
16	chr10:25247600-25248600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr10:25247600-25248600	Enhancers	A549	lung
18	chr10:25247800-25248600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr10:25247800-25248600	Enhancers	Brain Angular Gyrus	brain
20	chr10:25247800-25248600	Enhancers	HUVEC	blood vessel
21	chr10:25247800-25248800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr10:25247800-25249200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr10:25247800-25251600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr10:25248000-25248600	Enhancers	Muscle Satellite Cultured Cells	--
25	chr10:25248000-25248600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr10:25248000-25248600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr10:25248000-25248600	Enhancers	Ovary	ovary
28	chr10:25248000-25249000	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr10:25248000-25249000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
30	chr10:25248000-25249200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr10:25248200-25248600	Enhancers	Adipose Nuclei	Adipose
32	chr10:25248200-25248600	Enhancers	Brain Germinal Matrix	brain
33	chr10:25248200-25248600	Flanking Active TSS	Brain Substantia Nigra	brain
34	chr10:25248200-25248600	Enhancers	NH-A	brain
35	chr10:25248200-25248800	Enhancers	Osteobl	bone
36	chr10:25248200-25249200	Enhancers	Brain Cingulate Gyrus	brain
37	chr10:25248200-25250800	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr10:25248200-25250800	Weak transcription	Stomach Mucosa	stomach
39	chr10:25248200-25251600	Weak transcription	NHEK	skin
40	chr10:25248200-25253800	Weak transcription	Right Atrium	heart
41	chr10:25248400-25248600	Enhancers	Brain Inferior Temporal Lobe	brain
42	chr10:25248400-25248600	Flanking Active TSS	Rectal Smooth Muscle	rectum
43	chr10:25248400-25248600	Enhancers	K562	blood
44	chr10:25248400-25248600	Enhancers	NHLF	lung
45	chr10:25248400-25249000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr10:25248400-25249200	Enhancers	Brain Anterior Caudate	brain
47	chr10:25248400-25249200	Enhancers	Brain Hippocampus Middle	brain
48	chr10:25248400-25249200	Enhancers	NHDF-Ad	bronchial
49	chr10:25248400-25249400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr10:25248400-25249400	Enhancers	Cortex derived primary cultured neurospheres	brain

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