Variant report

Variant	rs61876948
Chromosome Location	chr11:9959510-9959511
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs12098983	0.91[EUR][1000 genomes]
rs12274440	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17271623	0.91[EUR][1000 genomes]
rs17272133	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17356369	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61876942	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61876945	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61876949	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61876951	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61876972	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61876973	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61876974	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61876975	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61876976	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61876977	0.91[EUR][1000 genomes]
rs61876978	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61876980	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61876982	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61876983	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61876984	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61877004	0.83[EUR][1000 genomes]
rs61877005	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6483859	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs66536570	0.83[EUR][1000 genomes]
rs7109648	0.83[EUR][1000 genomes]
rs7110027	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7117364	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7118211	0.82[AMR][1000 genomes]
rs7118427	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7120403	0.81[EUR][1000 genomes]
rs7123546	0.81[EUR][1000 genomes]
rs72854502	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72855652	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72855680	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72857108	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7342224	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7935235	0.88[EUR][1000 genomes]
rs7936602	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7938570	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7938773	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7945309	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7949110	0.88[EUR][1000 genomes]
rs7949493	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7952455	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9666488	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][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:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9894400-9978600	Weak transcription	Left Ventricle	heart
2	chr11:9929200-9966800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr11:9943400-9980600	Weak transcription	Primary T cells from cord blood	blood
4	chr11:9944800-9961000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr11:9944800-9969000	Weak transcription	Ovary	ovary
6	chr11:9945000-9967600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr11:9945400-9964800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr11:9950200-9980400	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr11:9952600-9966600	Weak transcription	Primary hematopoietic stem cells	blood
10	chr11:9952600-9968600	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr11:9952800-9967600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr11:9952800-9980200	Weak transcription	Aorta	Aorta
13	chr11:9952800-9980400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr11:9952800-9980600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr11:9952800-9980600	Weak transcription	Spleen	Spleen
16	chr11:9952800-9995200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr11:9953000-9962600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr11:9953000-9963600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr11:9953000-9963600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr11:9953000-9963600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr11:9953000-9969200	Weak transcription	Fetal Intestine Small	intestine
22	chr11:9953000-9978200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr11:9953000-9979600	Weak transcription	Fetal Stomach	stomach
24	chr11:9953000-9980200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr11:9953000-9980200	Weak transcription	Stomach Smooth Muscle	stomach
26	chr11:9953000-9980400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr11:9953000-9980400	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr11:9953000-9980400	Weak transcription	Esophagus	oesophagus
29	chr11:9953200-9963600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr11:9954400-9960800	Weak transcription	HepG2	liver
31	chr11:9958800-9978200	Weak transcription	Monocytes-CD14+_RO01746	blood
32	chr11:9959400-9963000	Weak transcription	NHDF-Ad	bronchial

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