Variant report

Variant	rs61858068
Chromosome Location	chr10:52280789-52280790
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:52176158..52178831-chr10:52279498..52281000,2	MCF-7	breast:
2	chr10:52279739..52282600-chr10:52286239..52288790,2	K562	blood:

Variant related genes	Relation type
ENSG00000198964	Chromatin interaction

Extended variants
information (count: 103 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs10490963	0.89[ASN][1000 genomes]
rs10490964	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11005626	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11005959	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12257419	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12262259	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1369860	0.89[ASN][1000 genomes]
rs17438825	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17440448	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17518471	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17519121	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17519380	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17721658	0.89[ASN][1000 genomes]
rs17721694	0.89[ASN][1000 genomes]
rs17721713	0.89[ASN][1000 genomes]
rs17778152	0.89[ASN][1000 genomes]
rs1916568	0.89[ASN][1000 genomes]
rs1916569	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1916571	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2060560	0.88[ASN][1000 genomes]
rs2064759	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2117961	0.82[ASN][1000 genomes]
rs2117962	0.89[ASN][1000 genomes]
rs2255387	0.88[ASN][1000 genomes]
rs2255720	0.88[ASN][1000 genomes]
rs2255849	0.88[ASN][1000 genomes]
rs2255853	0.88[ASN][1000 genomes]
rs2255859	0.86[ASN][1000 genomes]
rs2574955	0.88[ASN][1000 genomes]
rs2574956	0.88[ASN][1000 genomes]
rs2574981	0.88[ASN][1000 genomes]
rs2688875	0.85[ASN][1000 genomes]
rs2688877	0.82[ASN][1000 genomes]
rs2688879	0.88[ASN][1000 genomes]
rs2842102	0.88[ASN][1000 genomes]
rs2842105	0.88[ASN][1000 genomes]
rs2842106	0.88[ASN][1000 genomes]
rs2842107	0.88[ASN][1000 genomes]
rs2842109	0.88[ASN][1000 genomes]
rs34672995	0.92[ASN][1000 genomes]
rs34928652	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3802537	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4935152	0.89[ASN][1000 genomes]
rs4935673	0.89[ASN][1000 genomes]
rs4935703	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4935713	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4935729	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4935731	0.81[AMR][1000 genomes]
rs4935732	0.81[AMR][1000 genomes]
rs55773344	0.89[ASN][1000 genomes]
rs55861418	0.87[ASN][1000 genomes]
rs56078228	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56080689	0.89[ASN][1000 genomes]
rs56133398	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56225400	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56268559	0.89[ASN][1000 genomes]
rs56277433	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56403030	0.81[AMR][1000 genomes]
rs61559519	0.89[ASN][1000 genomes]
rs61741330	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61856761	0.89[ASN][1000 genomes]
rs61856763	0.89[ASN][1000 genomes]
rs61856778	0.89[ASN][1000 genomes]
rs61856782	0.89[ASN][1000 genomes]
rs61856787	0.92[ASN][1000 genomes]
rs61856788	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61856793	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61856794	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61856795	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61856828	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61856832	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61858062	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61858064	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61858065	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61858069	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61858206	0.89[ASN][1000 genomes]
rs61858207	0.89[ASN][1000 genomes]
rs7067626	0.89[ASN][1000 genomes]
rs7068430	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7069115	0.89[ASN][1000 genomes]
rs7082805	0.89[ASN][1000 genomes]
rs7092753	0.95[ASN][1000 genomes]
rs72801752	0.85[ASN][1000 genomes]
rs72801754	0.89[ASN][1000 genomes]
rs72801768	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72801775	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72801776	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72801781	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7392702	0.89[ASN][1000 genomes]
rs7475420	0.84[ASN][1000 genomes]
rs7921632	0.89[ASN][1000 genomes]
rs884880	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054775	chr10:51595893-52392361	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1051087	chr10:51886486-52447295	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv916214	chr10:51886486-52458983	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv918212	chr10:51886486-52465482	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv817412	chr10:51911034-52432990	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
6	nsv895391	chr10:52260398-52291608	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	nsv895392	chr10:52263910-52291608	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv467193	chr10:52265265-52289664	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv550855	chr10:52265265-52289664	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
10	nsv469522	chr10:52276564-52447589	Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
11	nsv482564	chr10:52276564-52447589	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52262200-52287200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr10:52266800-52282400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr10:52267000-52282400	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr10:52268200-52282400	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr10:52268200-52282600	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr10:52268400-52282200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr10:52270000-52282400	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr10:52270000-52282800	Weak transcription	Monocytes-CD14+_RO01746	blood
9	chr10:52270200-52282600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr10:52271200-52283000	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr10:52271600-52300600	Weak transcription	Aorta	Aorta
12	chr10:52271800-52280800	Weak transcription	Primary monocytes fromperipheralblood	blood
13	chr10:52272200-52281000	Weak transcription	Fetal Intestine Large	intestine
14	chr10:52272400-52284600	Weak transcription	Stomach Smooth Muscle	stomach
15	chr10:52272600-52302800	Weak transcription	Fetal Stomach	stomach
16	chr10:52272800-52281200	Weak transcription	Ovary	ovary
17	chr10:52272800-52281400	Weak transcription	Placenta	Placenta
18	chr10:52272800-52281600	Weak transcription	HepG2	liver
19	chr10:52272800-52288200	Weak transcription	HSMMtube	muscle
20	chr10:52273200-52281000	Weak transcription	Fetal Muscle Trunk	muscle
21	chr10:52273200-52281600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr10:52273200-52282600	Weak transcription	Right Ventricle	heart
23	chr10:52273200-52285800	Weak transcription	K562	blood
24	chr10:52273200-52287200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr10:52273200-52287400	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr10:52273200-52288400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr10:52273400-52281000	Weak transcription	Fetal Muscle Leg	muscle
28	chr10:52273400-52281000	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr10:52273400-52281000	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr10:52273400-52282600	Weak transcription	Thymus	Thymus
31	chr10:52273400-52282800	Weak transcription	Spleen	Spleen
32	chr10:52273400-52283800	Weak transcription	Fetal Thymus	thymus
33	chr10:52273400-52286000	Weak transcription	Skeletal Muscle Female	skeletal muscle
34	chr10:52273400-52287000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr10:52273400-52287200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
36	chr10:52273600-52286800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
37	chr10:52273600-52287400	Weak transcription	GM12878-XiMat	blood
38	chr10:52273600-52289600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr10:52273600-52298400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
40	chr10:52273600-52299800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
41	chr10:52273800-52282400	Weak transcription	Primary T cells from cord blood	blood
42	chr10:52274000-52282200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr10:52274000-52287200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr10:52274800-52288200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr10:52275200-52294200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr10:52275600-52282600	Weak transcription	Esophagus	oesophagus
47	chr10:52275600-52285000	Weak transcription	Gastric	stomach
48	chr10:52275600-52286800	Weak transcription	Pancreas	Pancrea
49	chr10:52276200-52281200	Weak transcription	Liver	Liver
50	chr10:52276200-52282600	Weak transcription	Right Atrium	heart

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