Variant report

Variant	rs9661677
Chromosome Location	chr1:239722531-239722532
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs6429139	0.80[AFR][1000 genomes]
rs6683171	0.83[AFR][1000 genomes]
rs7548791	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002301	chr1:239182255-239774393	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv549435	chr1:239375010-239974006	Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	esv3377526	chr1:239623743-240111639	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv873351	chr1:239636613-240324200	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:239712000-239731000	Weak transcription	Gastric	stomach
2	chr1:239719200-239731000	Weak transcription	Colon Smooth Muscle	Colon
3	chr1:239719800-239728800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr1:239721800-239723000	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr1:239721800-239723000	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr1:239721800-239723000	Enhancers	Monocytes-CD14+_RO01746	blood
7	chr1:239721800-239723200	Enhancers	Primary hematopoietic stem cells	blood
8	chr1:239722000-239722800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr1:239722000-239733600	Weak transcription	Pancreas	Pancrea
10	chr1:239722200-239722600	Enhancers	Duodenum Smooth Muscle	Duodenum
11	chr1:239722200-239722600	Enhancers	Pancreatic Islets	Pancreatic Islet
12	chr1:239722200-239722800	Enhancers	A549	lung
13	chr1:239722400-239722800	Enhancers	Primary T cells from cord blood	blood

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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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