Variant report

Variant	rs1016837
Chromosome Location	chr2:134285071-134285072
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr2:134283287-134285124	SK-N-MC	brain:	n/a	n/a

Variant related genes	Relation type
NCKAP5	TF binding region

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11891880	0.91[AMR][1000 genomes]
rs16826050	0.85[AMR][1000 genomes]
rs16826052	0.85[AMR][1000 genomes]
rs60316439	0.82[AMR][1000 genomes]
rs61578634	0.82[AMR][1000 genomes]
rs61590587	0.95[ASN][1000 genomes]
rs6720995	0.82[AMR][1000 genomes]
rs6732077	0.85[AMR][1000 genomes]
rs72990470	0.85[AMR][1000 genomes]
rs72990471	0.85[AMR][1000 genomes]
rs72990476	0.82[AMR][1000 genomes]
rs72990483	0.82[AMR][1000 genomes]
rs72990486	0.82[AMR][1000 genomes]
rs72990490	0.82[AMR][1000 genomes]
rs72990493	0.82[AMR][1000 genomes]
rs72990494	0.82[AMR][1000 genomes]
rs73003138	0.88[AMR][1000 genomes]
rs73003141	0.82[AMR][1000 genomes]
rs73003144	0.85[AMR][1000 genomes]
rs73003146	0.82[AMR][1000 genomes]
rs73003147	0.85[AMR][1000 genomes]
rs7340510	0.85[AMR][1000 genomes]
rs73960259	0.97[ASN][1000 genomes]
rs9917399	0.85[AMR][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	nsv997821	chr2:133868822-134360220	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv535927	chr2:133868822-134360220	Weak transcription Enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	nsv1003624	chr2:134126928-134583203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	esv2830192	chr2:134259612-134311713	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1006101	chr2:134263288-134973917	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:134268200-134290000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr2:134282000-134285400	Enhancers	Fetal Lung	lung
3	chr2:134282200-134286200	Enhancers	Fetal Brain Male	brain
4	chr2:134282600-134299200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr2:134282800-134285600	Enhancers	Fetal Stomach	stomach
6	chr2:134283000-134286000	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr2:134284000-134285200	Enhancers	Fetal Brain Female	brain
8	chr2:134284200-134286200	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr2:134284200-134286600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr2:134285000-134290800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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