Variant report

Variant	rs9399604
Chromosome Location	chr6:147842185-147842186
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12234160	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9377052	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9377053	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9377055	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390470	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9390471	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9390472	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403858	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9485188	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9485189	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9485190	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9485191	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9485192	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9485194	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9497792	1.00[EUR][1000 genomes];0.91[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	nsv604841	chr6:147832156-148193929	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1020247	chr6:147834097-148478053	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:147831600-147852000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr6:147832400-147844600	Weak transcription	HSMMtube	muscle
3	chr6:147832400-147851200	Weak transcription	Fetal Stomach	stomach
4	chr6:147832400-147851800	Weak transcription	Fetal Kidney	kidney
5	chr6:147832600-147851200	Weak transcription	Fetal Lung	lung
6	chr6:147833000-147844400	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr6:147835400-147848200	Weak transcription	Fetal Intestine Small	intestine
8	chr6:147837400-147856400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr6:147838200-147847000	Weak transcription	Liver	Liver
10	chr6:147838800-147851400	Weak transcription	Fetal Intestine Large	intestine
11	chr6:147840200-147842800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr6:147841800-147846400	Weak transcription	HSMM	muscle

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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