Variant report

Variant	rs13302349
Chromosome Location	chr9:85626272-85626273
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:85626061..85627670-chr9:85628324..85631017,2	MCF-7	breast:
2	chr9:85619463..85621402-chr9:85626088..85628025,2	MCF-7	breast:
3	chr9:85624665..85627555-chr9:85675813..85678218,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165105	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs1010480	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10115768	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10116254	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10121156	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10121204	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10121376	0.82[EUR][1000 genomes]
rs10121395	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10126033	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10746694	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10780562	0.92[EUR][1000 genomes]
rs10780563	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10780564	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10780565	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10780567	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10867924	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10867925	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10867926	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10867927	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10867928	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10867929	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11139896	0.87[ASN][1000 genomes]
rs1393562	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1393563	0.86[AMR][1000 genomes]
rs1393564	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1393565	0.93[EUR][1000 genomes]
rs1502682	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1502683	0.82[EUR][1000 genomes]
rs1502685	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1546315	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1546316	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1546317	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1580881	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1976455	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2279814	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs29001503	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4146960	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4146961	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4301515	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4348583	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4385545	0.92[EUR][1000 genomes]
rs4391505	0.82[EUR][1000 genomes]
rs4623517	0.92[EUR][1000 genomes]
rs4628323	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4877244	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4877724	0.81[EUR][1000 genomes]
rs4877725	0.82[EUR][1000 genomes]
rs6559694	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6559695	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7019227	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7024864	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7029133	0.86[AMR][1000 genomes]
rs7045914	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7847666	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7849126	0.80[EUR][1000 genomes]
rs7853052	0.82[EUR][1000 genomes]
rs7854101	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7862012	0.82[EUR][1000 genomes]
rs7866666	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7867614	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs952450	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs998119	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1050771	chr9:85416931-85643417	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv893511	chr9:85495968-85833127	Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85594800-85628200	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr9:85597200-85627000	Weak transcription	A549	lung
3	chr9:85603000-85628200	Weak transcription	Fetal Stomach	stomach
4	chr9:85603200-85643800	Weak transcription	Duodenum Mucosa	Duodenum
5	chr9:85608800-85628000	Weak transcription	Fetal Kidney	kidney
6	chr9:85610800-85642000	Weak transcription	Fetal Intestine Large	intestine
7	chr9:85613600-85643400	Weak transcription	Colonic Mucosa	Colon
8	chr9:85616200-85627200	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr9:85617200-85628000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr9:85617200-85628200	Weak transcription	HMEC	breast
11	chr9:85617200-85645800	Weak transcription	Stomach Mucosa	stomach
12	chr9:85621000-85645400	Weak transcription	Gastric	stomach
13	chr9:85623000-85626600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr9:85623000-85628400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr9:85623200-85630600	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr9:85623600-85634800	Weak transcription	Pancreas	Pancrea
17	chr9:85623600-85643200	Weak transcription	Fetal Intestine Small	intestine
18	chr9:85625800-85628000	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr9:85626000-85629800	Enhancers	Osteobl	bone
20	chr9:85626200-85626400	Enhancers	Aorta	Aorta
21	chr9:85626200-85626600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr9:85626200-85629800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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