Variant report

Variant	rs16844215
Chromosome Location	chr1:172257998-172257999
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	chr1:172256870..172259800-chr1:172260361..172262827,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PIGC-3	chr1:172257872-172258194	expReg_chr1_17771_-

Extended variants
information (count: 16 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs16843882	1.00[AMR][1000 genomes]
rs55690470	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56109092	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56189708	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56239164	1.00[AMR][1000 genomes]
rs56401358	1.00[AMR][1000 genomes]
rs57282950	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58479172	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59207214	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124045	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124046	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124048	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124050	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74124052	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7541934	1.00[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1006542	chr1:172253765-172304690	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172239000-172262000	Weak transcription	Fetal Muscle Leg	muscle
2	chr1:172254800-172258400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr1:172255800-172258000	Enhancers	NHDF-Ad	bronchial
4	chr1:172256200-172267400	Weak transcription	Left Ventricle	heart
5	chr1:172256200-172267400	Weak transcription	Psoas Muscle	Psoas
6	chr1:172256200-172290000	Weak transcription	Brain Hippocampus Middle	brain
7	chr1:172256400-172258400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr1:172256400-172262000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr1:172256400-172290200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr1:172256600-172262000	Weak transcription	Ovary	ovary
11	chr1:172256600-172265200	Weak transcription	NH-A	brain
12	chr1:172256600-172289800	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr1:172256800-172262200	Weak transcription	Adipose Nuclei	Adipose
14	chr1:172257000-172258000	Enhancers	Right Ventricle	heart
15	chr1:172257200-172261800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr1:172257200-172262000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr1:172257200-172262200	Weak transcription	Osteobl	bone
18	chr1:172257600-172258000	Enhancers	Fetal Lung	lung
19	chr1:172257600-172262000	Weak transcription	NHLF	lung
20	chr1:172257600-172267400	Weak transcription	Pancreas	Pancrea
21	chr1:172257800-172258600	Enhancers	Fetal Heart	heart

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