Variant report

Variant	rs540963
Chromosome Location	chr10:97361407-97361408
allele	A/C
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:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:97189782..97190781-chr10:97360668..97361524,4	MCF-7	breast:
2	chr10:97239375..97239913-chr10:97360587..97361534,2	MCF-7	breast:
3	chr10:97226590..97227155-chr10:97360952..97361496,2	K562	blood:
4	chr10:97134068..97135058-chr10:97360561..97361606,11	K562	blood:
5	chr10:97189856..97190852-chr10:97360581..97361516,9	MCF-7	breast:
6	chr10:97149394..97150351-chr10:97360708..97361426,3	MCF-7	breast:
7	chr10:97122750..97123330-chr10:97360929..97361471,2	MCF-7	breast:
8	chr10:97189854..97191679-chr10:97360563..97361585,11	K562	blood:
9	chr10:97134082..97135344-chr10:97360078..97361554,17	MCF-7	breast:
10	chr10:97149803..97150837-chr10:97360594..97361494,3	MCF-7	breast:
11	chr10:97205315..97206214-chr10:97360559..97361486,6	MCF-7	breast:
12	chr10:97096077..97097107-chr10:97360732..97361499,3	K562	blood:

No data

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs10159941	0.92[CHB][hapmap]
rs10509687	1.00[CHB][hapmap]
rs10748634	1.00[CEU][hapmap];0.92[CHB][hapmap];0.97[GIH][hapmap];0.89[JPT][hapmap];0.96[TSI][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10748635	0.91[CHB][hapmap]
rs10748637	0.92[CHB][hapmap]
rs10748638	0.84[JPT][hapmap]
rs10748642	0.84[JPT][hapmap]
rs10748643	0.84[JPT][hapmap]
rs10786228	0.84[CHB][hapmap];0.82[JPT][hapmap]
rs10786230	0.92[CHB][hapmap]
rs10786235	0.92[CHB][hapmap]
rs10786236	0.83[JPT][hapmap]
rs10882646	1.00[CEU][hapmap];0.92[CHB][hapmap];0.89[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10882653	0.92[CHB][hapmap]
rs10882656	0.84[JPT][hapmap]
rs10882657	0.84[JPT][hapmap]
rs10882660	0.84[JPT][hapmap]
rs10882664	1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[GIH][hapmap];0.89[JPT][hapmap];0.81[MEX][hapmap];0.96[TSI][hapmap]
rs10882665	1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[GIH][hapmap];0.89[JPT][hapmap];0.81[MEX][hapmap];0.96[TSI][hapmap]
rs11188414	0.84[CHB][hapmap];0.84[JPT][hapmap]
rs11188459	0.92[CHB][hapmap]
rs11188485	0.92[CHB][hapmap]
rs11188486	0.84[JPT][hapmap]
rs11188488	0.92[CHB][hapmap]
rs11596004	0.81[CEU][hapmap];0.82[CHB][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11596976	0.89[EUR][1000 genomes]
rs12262943	0.92[CHB][hapmap]
rs1418709	0.84[JPT][hapmap]
rs17111041	1.00[CHB][hapmap]
rs1890186	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1933165	0.84[JPT][hapmap]
rs1933166	0.92[CHB][hapmap]
rs1933169	1.00[CEU][hapmap];0.84[CHB][hapmap];0.88[JPT][hapmap];0.86[EUR][1000 genomes]
rs1953710	0.92[CHB][hapmap]
rs2153913	0.84[JPT][hapmap]
rs2211002	1.00[CEU][hapmap];0.92[CHB][hapmap];0.89[JPT][hapmap];0.95[TSI][hapmap];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2225893	1.00[CHB][hapmap]
rs2275273	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs2485643	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2861147	0.84[JPT][hapmap]
rs2861148	0.81[JPT][hapmap]
rs2861149	1.00[CEU][hapmap];0.89[JPT][hapmap];0.83[EUR][1000 genomes]
rs3750700	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs3750701	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs3793748	1.00[CHB][hapmap]
rs3814159	0.83[JPT][hapmap]
rs3929900	0.82[JPT][hapmap]
rs3934409	0.84[JPT][hapmap]
rs3949478	0.85[CHB][hapmap];0.87[GIH][hapmap];0.89[JPT][hapmap]
rs4244319	0.86[EUR][1000 genomes]
rs4290159	0.91[CHB][hapmap]
rs4431963	0.83[JPT][hapmap]
rs4457685	0.92[CHB][hapmap]
rs4501930	1.00[CEU][hapmap];0.85[CHB][hapmap];0.83[EUR][1000 genomes]
rs4551688	0.84[JPT][hapmap]
rs4582902	0.84[JPT][hapmap]
rs476373	0.81[AFR][1000 genomes]
rs479505	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4918950	1.00[CEU][hapmap];0.92[CHB][hapmap];0.89[JPT][hapmap]
rs4918962	0.84[JPT][hapmap]
rs4918964	0.92[CHB][hapmap]
rs496426	1.00[CEU][hapmap];0.92[CHB][hapmap];0.97[GIH][hapmap];0.84[JPT][hapmap];0.81[MEX][hapmap];0.96[TSI][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs496641	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs497331	1.00[CHB][hapmap]
rs5014871	0.84[JPT][hapmap]
rs540145	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs546138	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs549042	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs571505	1.00[CHB][hapmap]
rs6584022	0.83[JPT][hapmap]
rs6584023	0.84[JPT][hapmap]
rs6584026	0.92[CHB][hapmap]
rs6584027	0.84[JPT][hapmap]
rs6584028	0.92[CHB][hapmap]
rs7069234	0.92[CHB][hapmap]
rs7071836	0.84[JPT][hapmap]
rs7072572	0.83[EUR][1000 genomes]
rs7073723	0.92[CHB][hapmap]
rs7081414	0.92[CHB][hapmap]
rs7086986	0.84[JPT][hapmap]
rs7095587	0.84[JPT][hapmap]
rs7905653	0.92[CHB][hapmap]
rs7909569	1.00[CEU][hapmap];0.92[CHB][hapmap];0.89[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7915345	0.92[CHB][hapmap]
rs7918235	0.92[CHB][hapmap]
rs7920850	0.92[CHB][hapmap]
rs945958	1.00[CEU][hapmap];0.92[CHB][hapmap];0.89[JPT][hapmap];0.90[EUR][1000 genomes]
rs9787589	0.92[EUR][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	nsv526180	chr10:97332195-97511037	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97335200-97373400	Weak transcription	Psoas Muscle	Psoas
2	chr10:97359400-97364600	Weak transcription	Placenta	Placenta
3	chr10:97360000-97361600	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr10:97360000-97364000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr10:97360200-97361600	Enhancers	Rectal Smooth Muscle	rectum
6	chr10:97360200-97364400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr10:97360200-97364600	Weak transcription	GM12878-XiMat	blood
8	chr10:97360400-97364400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr10:97360400-97364600	Enhancers	HepG2	liver
10	chr10:97360600-97361600	Enhancers	Fetal Intestine Small	intestine
11	chr10:97360600-97363200	Weak transcription	Right Ventricle	heart
12	chr10:97360600-97364000	Weak transcription	Right Atrium	heart
13	chr10:97360800-97362600	Enhancers	Fetal Intestine Large	intestine
14	chr10:97360800-97364400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr10:97360800-97364400	Weak transcription	Fetal Brain Female	brain
16	chr10:97360800-97364800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr10:97360800-97365000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr10:97360800-97365000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr10:97360800-97366200	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr10:97361000-97361600	Enhancers	Stomach Smooth Muscle	stomach
21	chr10:97361000-97361800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr10:97361000-97363800	Weak transcription	Fetal Stomach	stomach
23	chr10:97361000-97364600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr10:97361000-97364600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr10:97361000-97364800	Weak transcription	Stomach Mucosa	stomach
26	chr10:97361000-97365000	Weak transcription	Adipose Nuclei	Adipose
27	chr10:97361000-97365000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr10:97361000-97365000	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr10:97361000-97365200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr10:97361000-97366000	Weak transcription	Hela-S3	cervix
31	chr10:97361000-97366400	Weak transcription	Brain Cingulate Gyrus	brain
32	chr10:97361000-97366800	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr10:97361000-97367600	Weak transcription	Fetal Kidney	kidney
34	chr10:97361000-97368200	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr10:97361000-97368400	Weak transcription	Brain Hippocampus Middle	brain
36	chr10:97361200-97361600	Enhancers	HUES64 Cell Line	embryonic stem cell
37	chr10:97361200-97363200	Weak transcription	Fetal Muscle Leg	muscle
38	chr10:97361200-97364200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr10:97361200-97364800	Weak transcription	Brain Anterior Caudate	brain
40	chr10:97361400-97363200	Weak transcription	HSMMtube	muscle
41	chr10:97361400-97363800	Weak transcription	Colon Smooth Muscle	Colon
42	chr10:97361400-97364000	Weak transcription	Skeletal Muscle Female	skeletal muscle
43	chr10:97361400-97364200	Weak transcription	Fetal Heart	heart
44	chr10:97361400-97364400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr10:97361400-97364400	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr10:97361400-97364400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr10:97361400-97364600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
48	chr10:97361400-97365200	Weak transcription	HUES48 Cell Line	embryonic stem cell
49	chr10:97361400-97365800	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr10:97361400-97366600	Weak transcription	K562	blood

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