Variant report

Variant	rs13141322
Chromosome Location	chr4:85832578-85832579
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	chr4:85826077..85827667-chr4:85831110..85833751,2	MCF-7	breast:

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10029496	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10856851	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10856852	0.88[EUR][1000 genomes]
rs11097026	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11730981	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11732309	0.85[EUR][1000 genomes]
rs11732347	0.85[EUR][1000 genomes]
rs12498637	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12498787	0.84[EUR][1000 genomes]
rs12503215	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12506456	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12510410	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12640378	0.83[EUR][1000 genomes]
rs12648852	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13109918	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13114115	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13124246	0.85[EUR][1000 genomes]
rs13148035	0.84[EUR][1000 genomes]
rs1484660	0.92[AMR][1000 genomes]
rs1508670	0.81[EUR][1000 genomes]
rs17009341	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2046402	0.91[AMR][1000 genomes]
rs2046404	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2869216	0.87[AMR][1000 genomes]
rs28754901	0.88[EUR][1000 genomes]
rs34239067	0.83[EUR][1000 genomes]
rs34314581	0.86[EUR][1000 genomes]
rs4131745	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4376130	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4464556	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4470615	0.82[EUR][1000 genomes]
rs4533765	0.88[EUR][1000 genomes]
rs4624645	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4626191	0.84[EUR][1000 genomes]
rs4634212	0.81[EUR][1000 genomes]
rs56194765	0.85[EUR][1000 genomes]
rs6531775	0.82[AMR][1000 genomes]
rs6531777	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6531782	0.84[EUR][1000 genomes]
rs67045782	0.96[AMR][1000 genomes]
rs6833661	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6835046	0.86[AMR][1000 genomes]
rs6847811	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6857555	0.92[AMR][1000 genomes]
rs6858666	0.82[AMR][1000 genomes]
rs72664926	0.83[AMR][1000 genomes]
rs72664934	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs72664952	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72664957	0.82[EUR][1000 genomes]
rs7654035	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7661609	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7663580	0.85[EUR][1000 genomes]
rs7675324	0.84[EUR][1000 genomes]
rs7694949	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7699226	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9684737	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9790649	0.83[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	esv1829655	chr4:85577491-86292692	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv427684	chr4:85668487-85863446	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv519588	chr4:85762385-86591202	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv879515	chr4:85789940-85843244	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv508295	chr4:85822802-85885027	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:85778000-85836600	Weak transcription	Rectal Smooth Muscle	rectum
2	chr4:85778800-85832800	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr4:85781800-85848600	Weak transcription	Stomach Smooth Muscle	stomach
4	chr4:85798400-85833400	Weak transcription	Fetal Brain Female	brain
5	chr4:85798800-85873200	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr4:85799600-85841600	Weak transcription	HMEC	breast
7	chr4:85801400-85843800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr4:85809000-85872800	Weak transcription	A549	lung
9	chr4:85809600-85834600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr4:85811800-85833000	Weak transcription	Aorta	Aorta
11	chr4:85811800-85851200	Weak transcription	Esophagus	oesophagus
12	chr4:85812800-85843600	Weak transcription	HepG2	liver
13	chr4:85813000-85858800	Weak transcription	Duodenum Mucosa	Duodenum
14	chr4:85814400-85833000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr4:85814400-85836000	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr4:85814400-85837000	Weak transcription	Fetal Kidney	kidney
17	chr4:85814600-85833000	Weak transcription	Brain Cingulate Gyrus	brain
18	chr4:85814600-85834400	Weak transcription	Fetal Lung	lung
19	chr4:85814600-85835800	Weak transcription	Colon Smooth Muscle	Colon
20	chr4:85814600-85836000	Weak transcription	Brain Substantia Nigra	brain
21	chr4:85814600-85836400	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr4:85816000-85837400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr4:85816000-85852400	Weak transcription	Left Ventricle	heart
24	chr4:85816800-85841600	Weak transcription	NH-A	brain
25	chr4:85817000-85832600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr4:85819400-85836800	Weak transcription	Primary hematopoietic stem cells	blood
27	chr4:85821600-85858400	Weak transcription	Pancreas	Pancrea
28	chr4:85822400-85833200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr4:85822400-85833200	Weak transcription	Brain Angular Gyrus	brain
30	chr4:85822600-85834000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr4:85822600-85834200	Weak transcription	NHDF-Ad	bronchial
32	chr4:85822600-85835800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr4:85822600-85839800	Weak transcription	Fetal Brain Male	brain
34	chr4:85822600-85844800	Weak transcription	Placenta	Placenta
35	chr4:85823400-85835800	Weak transcription	Brain Hippocampus Middle	brain
36	chr4:85824200-85836600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr4:85825000-85834200	Weak transcription	NHEK	skin
38	chr4:85825400-85840200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr4:85825400-85841600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr4:85825400-85848600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr4:85825400-85848600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr4:85825600-85848800	Weak transcription	Fetal Muscle Trunk	muscle
43	chr4:85825600-85849000	Weak transcription	Fetal Intestine Large	intestine
44	chr4:85825600-85849000	Weak transcription	Fetal Muscle Leg	muscle
45	chr4:85826200-85845400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr4:85826400-85849200	Weak transcription	Fetal Stomach	stomach
47	chr4:85827200-85833000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
48	chr4:85827200-85833200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr4:85827200-85833400	Weak transcription	HSMMtube	muscle
50	chr4:85827200-85837200	Weak transcription	HUES6 Cell Line	embryonic stem cell

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