Variant report

Variant	rs72855652
Chromosome Location	chr11:9969294-9969295
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	chr11:9967314..9969682-chr11:9973855..9976394,2	MCF-7	breast:

Extended variants
information (count: 98 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs11608212	1.00[ASN][1000 genomes]
rs12098983	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12274440	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17271223	1.00[ASN][1000 genomes]
rs17271623	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17272133	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17292774	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17355751	1.00[ASN][1000 genomes]
rs17356069	1.00[ASN][1000 genomes]
rs17356237	1.00[ASN][1000 genomes]
rs17356369	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17358721	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17358882	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4910071	1.00[ASN][1000 genomes]
rs55811615	1.00[ASN][1000 genomes]
rs56067762	1.00[ASN][1000 genomes]
rs61876910	1.00[ASN][1000 genomes]
rs61876915	1.00[ASN][1000 genomes]
rs61876922	1.00[ASN][1000 genomes]
rs61876923	1.00[ASN][1000 genomes]
rs61876926	1.00[ASN][1000 genomes]
rs61876927	1.00[ASN][1000 genomes]
rs61876942	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876945	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876948	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61876949	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876951	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876972	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876973	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876974	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876975	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876976	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876977	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876978	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876980	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876982	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876983	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876984	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61877004	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61877005	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61877038	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs61877039	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61877042	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs61877044	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61877046	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61877050	1.00[ASN][1000 genomes]
rs61877054	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs61878586	1.00[ASN][1000 genomes]
rs61878652	0.80[AMR][1000 genomes]
rs61878654	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61878655	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61878657	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61878658	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61878659	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61880160	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6483792	1.00[ASN][1000 genomes]
rs6483859	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66536570	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66553354	1.00[ASN][1000 genomes]
rs7105355	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7108187	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7109648	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7110027	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7117364	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7118211	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7118427	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7120043	1.00[ASN][1000 genomes]
rs7120403	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7122370	1.00[ASN][1000 genomes]
rs7123467	0.80[AMR][1000 genomes]
rs7123546	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7129274	1.00[ASN][1000 genomes]
rs7130478	1.00[ASN][1000 genomes]
rs7131546	1.00[ASN][1000 genomes]
rs72854502	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72855680	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72857108	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72858820	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72858863	1.00[ASN][1000 genomes]
rs72858902	1.00[ASN][1000 genomes]
rs7342224	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7928664	1.00[ASN][1000 genomes]
rs7935235	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7935610	1.00[ASN][1000 genomes]
rs7936602	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7938570	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7938773	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7939096	1.00[ASN][1000 genomes]
rs7939269	1.00[ASN][1000 genomes]
rs7942807	1.00[ASN][1000 genomes]
rs7945309	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7949110	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7949493	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7952455	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9666488	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv896988	chr11:9912052-10012511	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv896989	chr11:9951968-10059623	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9894400-9978600	Weak transcription	Left Ventricle	heart
2	chr11:9943400-9980600	Weak transcription	Primary T cells from cord blood	blood
3	chr11:9950200-9980400	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr11:9952800-9980200	Weak transcription	Aorta	Aorta
5	chr11:9952800-9980400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr11:9952800-9980600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr11:9952800-9980600	Weak transcription	Spleen	Spleen
8	chr11:9952800-9995200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr11:9953000-9978200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr11:9953000-9979600	Weak transcription	Fetal Stomach	stomach
11	chr11:9953000-9980200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr11:9953000-9980200	Weak transcription	Stomach Smooth Muscle	stomach
13	chr11:9953000-9980400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr11:9953000-9980400	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr11:9953000-9980400	Weak transcription	Esophagus	oesophagus
16	chr11:9958800-9978200	Weak transcription	Monocytes-CD14+_RO01746	blood
17	chr11:9960600-9973400	Weak transcription	Fetal Heart	heart
18	chr11:9964400-9973600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr11:9964400-9980200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr11:9964800-9980400	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr11:9965200-9975600	Weak transcription	HSMM	muscle
22	chr11:9965200-9981000	Weak transcription	HUVEC	blood vessel
23	chr11:9965400-9980200	Weak transcription	Liver	Liver
24	chr11:9965600-9973200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr11:9965600-9973400	Weak transcription	A549	lung
26	chr11:9965800-9973400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr11:9966000-9975200	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr11:9966000-9975600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr11:9966000-9980200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr11:9966000-9980200	Weak transcription	NHLF	lung
31	chr11:9966200-9980200	Weak transcription	Osteobl	bone
32	chr11:9966600-9973200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr11:9967600-9969800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr11:9967600-9980200	Weak transcription	Fetal Intestine Large	intestine
35	chr11:9967600-9980400	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr11:9967800-9973800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr11:9967800-9977800	Weak transcription	Fetal Lung	lung
38	chr11:9967800-9980200	Weak transcription	Primary monocytes fromperipheralblood	blood
39	chr11:9967800-9980200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
40	chr11:9967800-9980200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr11:9967800-9980400	Weak transcription	Primary hematopoietic stem cells	blood
42	chr11:9968000-9973200	Weak transcription	Adipose Nuclei	Adipose
43	chr11:9968000-9973400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr11:9968000-9973400	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr11:9968000-9973400	Weak transcription	Brain Anterior Caudate	brain
46	chr11:9968000-9976400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr11:9968000-9979600	Weak transcription	Fetal Muscle Leg	muscle
48	chr11:9968000-9980200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr11:9968000-9980400	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr11:9968000-9980400	Weak transcription	Dnd41	blood

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