Variant report

Variant	rs17880863
Chromosome Location	chr10:44876499-44876500
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	chr10:44874626..44876126-chr10:44876143..44877664,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs17156287	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17482472	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17879548	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17880358	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17881575	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17883339	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17885289	1.00[ASN][1000 genomes]
rs197452	1.00[ASN][1000 genomes]
rs266088	0.83[ASN][1000 genomes]
rs2839680	0.96[ASN][1000 genomes]
rs2839682	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2839684	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2839686	1.00[ASN][1000 genomes]
rs2861442	0.96[ASN][1000 genomes]
rs3780891	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7093481	0.96[ASN][1000 genomes]
rs72790861	1.00[ASN][1000 genomes]
rs72790862	1.00[ASN][1000 genomes]
rs728142	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054649	chr10:44848921-44889713	Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
2	nsv550699	chr10:44868257-44882203	Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv895089	chr10:44874867-44880838	Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv895090	chr10:44874867-44884959	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv895091	chr10:44875040-44888130	Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv895092	chr10:44875166-44884959	Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv895093	chr10:44876461-44884959	Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv895094	chr10:44876499-44884959	Bivalent Enhancer Weak transcription Bivalent/Poised TSS Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44850600-44877600	Weak transcription	Duodenum Mucosa	Duodenum
2	chr10:44860000-44879000	Weak transcription	Gastric	stomach
3	chr10:44864600-44876800	Strong transcription	Fetal Stomach	stomach
4	chr10:44864800-44877800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr10:44865600-44878000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr10:44866000-44877600	Weak transcription	Fetal Brain Female	brain
7	chr10:44866400-44878600	Weak transcription	Liver	Liver
8	chr10:44866600-44877600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr10:44867000-44878200	Weak transcription	Brain Hippocampus Middle	brain
10	chr10:44867400-44878000	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr10:44867600-44878600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr10:44869600-44878200	Weak transcription	Brain Substantia Nigra	brain
13	chr10:44870200-44877600	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr10:44871000-44877600	Weak transcription	Rectal Smooth Muscle	rectum
15	chr10:44871600-44877000	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr10:44871800-44877000	Weak transcription	Stomach Smooth Muscle	stomach
17	chr10:44872400-44877400	Weak transcription	Fetal Kidney	kidney
18	chr10:44873200-44877600	Weak transcription	Lung	lung
19	chr10:44873600-44876600	Strong transcription	Fetal Lung	lung
20	chr10:44874400-44877800	Weak transcription	Right Ventricle	heart
21	chr10:44874600-44876600	Genic enhancers	Fetal Muscle Leg	muscle
22	chr10:44874600-44877800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr10:44874600-44877800	Enhancers	Psoas Muscle	Psoas
24	chr10:44874800-44877800	Weak transcription	Spleen	Spleen
25	chr10:44874800-44879200	Weak transcription	Aorta	Aorta
26	chr10:44875200-44877600	Weak transcription	Ovary	ovary
27	chr10:44875200-44877800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr10:44875200-44878000	Weak transcription	NH-A	brain
29	chr10:44875400-44876600	Genic enhancers	iPS-20b Cell Line	embryonic stem cell
30	chr10:44875600-44876600	Transcr. at gene 5' and 3'	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr10:44875600-44876600	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
32	chr10:44875600-44877400	Enhancers	iPS-15b Cell Line	embryonic stem cell
33	chr10:44875800-44876600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr10:44875800-44877600	Enhancers	ES-I3 Cell Line	embryonic stem cell
35	chr10:44875800-44878000	Weak transcription	NHLF	lung
36	chr10:44876000-44877000	Genic enhancers	Osteobl	bone
37	chr10:44876000-44877600	Weak transcription	Colon Smooth Muscle	Colon
38	chr10:44876000-44878000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
39	chr10:44876000-44878600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr10:44876200-44876600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr10:44876200-44876600	Enhancers	Brain Anterior Caudate	brain
42	chr10:44876200-44876600	Genic enhancers	Left Ventricle	heart
43	chr10:44876200-44876600	Enhancers	Right Atrium	heart
44	chr10:44876200-44877000	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr10:44876200-44877400	Enhancers	HUES64 Cell Line	embryonic stem cell
46	chr10:44876200-44877600	Enhancers	H9 Cell Line	embryonic stem cell
47	chr10:44876200-44877600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
48	chr10:44876200-44877800	Enhancers	Brain Germinal Matrix	brain
49	chr10:44876200-44878400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
50	chr10:44876400-44876600	Genic enhancers	Fetal Muscle Trunk	muscle

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