Variant report

Variant	rs10261559
Chromosome Location	chr7:138556954-138556955
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:138144204..138146819-chr7:138556624..138559620,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000122779	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10249247	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10252467	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10261424	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10278730	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10954634	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12114019	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34717241	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34851167	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6958217	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6961366	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6968792	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6972391	0.83[AMR][1000 genomes]
rs6974263	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6974361	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6979589	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030956	chr7:138163169-138579519	Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Genic enhancers Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv831154	chr7:138470488-138674113	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv1027143	chr7:138480084-138992900	ZNF genes & repeats Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv539136	chr7:138480084-138992900	Weak transcription Genic enhancers Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
5	esv1800954	chr7:138541488-138557718	Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:138518200-138565800	Weak transcription	Duodenum Mucosa	Duodenum
2	chr7:138521000-138571000	Weak transcription	Brain Anterior Caudate	brain
3	chr7:138523800-138572400	Weak transcription	Fetal Heart	heart
4	chr7:138530800-138566000	Weak transcription	Brain Hippocampus Middle	brain
5	chr7:138532200-138557400	Weak transcription	Small Intestine	intestine
6	chr7:138534600-138592400	Weak transcription	Brain Angular Gyrus	brain
7	chr7:138536800-138565200	Weak transcription	Fetal Kidney	kidney
8	chr7:138536800-138583000	Weak transcription	HUVEC	blood vessel
9	chr7:138539200-138557800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr7:138539200-138570400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr7:138542600-138568400	Weak transcription	HepG2	liver
12	chr7:138543000-138558600	Strong transcription	Fetal Stomach	stomach
13	chr7:138543000-138569000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr7:138543400-138560000	Weak transcription	Dnd41	blood
15	chr7:138543400-138561200	Weak transcription	HSMM	muscle
16	chr7:138543400-138565800	Weak transcription	Adipose Nuclei	Adipose
17	chr7:138543800-138561000	Weak transcription	NHDF-Ad	bronchial
18	chr7:138544400-138565800	Weak transcription	Brain Substantia Nigra	brain
19	chr7:138544600-138574800	Weak transcription	Spleen	Spleen
20	chr7:138544800-138557800	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr7:138545400-138597200	Weak transcription	Rectal Smooth Muscle	rectum
22	chr7:138546000-138566200	Weak transcription	Brain Cingulate Gyrus	brain
23	chr7:138546200-138569400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr7:138546200-138571400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr7:138547000-138565400	Weak transcription	Right Atrium	heart
26	chr7:138547200-138561200	Weak transcription	NHLF	lung
27	chr7:138547400-138557000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr7:138549200-138596800	Weak transcription	Aorta	Aorta
29	chr7:138549600-138560200	Weak transcription	Osteobl	bone
30	chr7:138550200-138557400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr7:138550400-138557600	Weak transcription	HMEC	breast
32	chr7:138550600-138557600	Weak transcription	A549	lung
33	chr7:138550800-138560600	Weak transcription	Fetal Thymus	thymus
34	chr7:138553000-138561200	Weak transcription	Primary hematopoietic stem cells	blood
35	chr7:138553000-138592200	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr7:138554200-138557800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr7:138554200-138581600	Weak transcription	Stomach Smooth Muscle	stomach
38	chr7:138554400-138557400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr7:138554400-138557400	Weak transcription	Hela-S3	cervix
40	chr7:138554400-138557800	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr7:138554400-138558000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr7:138554400-138565800	Weak transcription	Lung	lung
43	chr7:138554400-138574800	Weak transcription	Esophagus	oesophagus
44	chr7:138554600-138561400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr7:138555200-138557200	Weak transcription	NHEK	skin
46	chr7:138555200-138566000	Weak transcription	Brain Inferior Temporal Lobe	brain
47	chr7:138555400-138557400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr7:138555400-138559600	Enhancers	Fetal Brain Male	brain
49	chr7:138555400-138565600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr7:138555400-138566200	Weak transcription	Gastric	stomach

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