Variant report

Variant	rs61899361
Chromosome Location	chr11:3836870-3836871
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:3828799..3831642-chr11:3834468..3837117,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000148985	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1049388	1.00[ASN][1000 genomes]
rs11029983	1.00[ASN][1000 genomes]
rs11030043	1.00[ASN][1000 genomes]
rs11030044	1.00[ASN][1000 genomes]
rs11030055	1.00[ASN][1000 genomes]
rs11030173	1.00[ASN][1000 genomes]
rs11600857	1.00[ASN][1000 genomes]
rs11606318	1.00[ASN][1000 genomes]
rs11606483	1.00[ASN][1000 genomes]
rs17173882	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17191448	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17276405	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17276453	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4910577	1.00[ASN][1000 genomes]
rs4910846	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4910852	1.00[ASN][1000 genomes]
rs4910856	1.00[ASN][1000 genomes]
rs4910857	1.00[ASN][1000 genomes]
rs61896929	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61896930	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896931	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896953	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896954	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896956	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896957	1.00[ASN][1000 genomes]
rs61896958	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61896959	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61899362	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61899363	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61899392	1.00[ASN][1000 genomes]
rs61899393	1.00[ASN][1000 genomes]
rs6578414	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7101788	1.00[ASN][1000 genomes]
rs72844340	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72844341	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73430467	1.00[ASN][1000 genomes]
rs74050940	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049560	chr11:3678259-3980746	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv540907	chr11:3678259-3980746	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv1052744	chr11:3739162-4017601	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers 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 miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv1047025	chr11:3750969-4017601	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	esv1803195	chr11:3806490-3924156	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv1046065	chr11:3808818-4049150	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription 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 lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
7	nsv540909	chr11:3808818-4049150	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
8	nsv1038220	chr11:3818041-3860024	Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
9	nsv1044882	chr11:3828986-3860024	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
10	nsv1044360	chr11:3832288-3860024	Strong transcription Transcr. at gene 5' and 3' Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:3830200-3837200	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr11:3830200-3837600	Weak transcription	Lung	lung
3	chr11:3830200-3845200	Weak transcription	Spleen	Spleen
4	chr11:3830200-3845400	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr11:3830200-3852400	Weak transcription	Fetal Brain Male	brain
6	chr11:3830400-3844600	Weak transcription	Brain Cingulate Gyrus	brain
7	chr11:3830400-3844600	Weak transcription	Brain Germinal Matrix	brain
8	chr11:3830400-3844600	Weak transcription	Stomach Smooth Muscle	stomach
9	chr11:3830400-3844600	Weak transcription	Thymus	Thymus
10	chr11:3830400-3845000	Weak transcription	Fetal Brain Female	brain
11	chr11:3830400-3846800	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr11:3830400-3847200	Weak transcription	Rectal Smooth Muscle	rectum
13	chr11:3830600-3837000	Weak transcription	Primary T cells from cord blood	blood
14	chr11:3830600-3837600	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr11:3830600-3838400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr11:3830600-3844600	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr11:3830600-3844800	Weak transcription	NHLF	lung
18	chr11:3830600-3845000	Weak transcription	GM12878-XiMat	blood
19	chr11:3830600-3845200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr11:3830600-3845600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr11:3830600-3847000	Weak transcription	Colonic Mucosa	Colon
22	chr11:3830600-3848000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr11:3830600-3861000	Weak transcription	Fetal Kidney	kidney
24	chr11:3830800-3838600	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr11:3830800-3844000	Weak transcription	Brain Angular Gyrus	brain
26	chr11:3830800-3844400	Weak transcription	Primary hematopoietic stem cells	blood
27	chr11:3830800-3844800	Weak transcription	Primary T cells fromperipheralblood	blood
28	chr11:3830800-3845200	Weak transcription	Pancreas	Pancrea
29	chr11:3830800-3845400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr11:3830800-3845400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr11:3830800-3845600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr11:3830800-3845800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr11:3830800-3845800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
34	chr11:3830800-3846000	Weak transcription	A549	lung
35	chr11:3830800-3846200	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr11:3830800-3846200	Weak transcription	HUES48 Cell Line	embryonic stem cell
37	chr11:3830800-3846200	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr11:3830800-3846600	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr11:3831000-3837000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr11:3831000-3837600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr11:3831000-3837800	Weak transcription	Brain Substantia Nigra	brain
42	chr11:3831000-3838400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
43	chr11:3831000-3842000	Weak transcription	Liver	Liver
44	chr11:3831000-3844800	Weak transcription	Dnd41	blood
45	chr11:3831000-3845400	Weak transcription	Primary T helper cells PMA-I stimulated	--
46	chr11:3831000-3845400	Weak transcription	Primary T helper cells fromperipheralblood	blood
47	chr11:3831000-3845800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
48	chr11:3831000-3845800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr11:3831000-3845800	Weak transcription	Primary B cells from peripheral blood	blood
50	chr11:3831000-3846200	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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