Variant report

Variant	rs55880438
Chromosome Location	chr1:239703151-239703152
allele	A/G
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:13)

rs_ID	r²[population]
rs10925919	1.00[ASN][1000 genomes]
rs12057628	0.83[ASN][1000 genomes]
rs12057740	1.00[ASN][1000 genomes]
rs12074530	1.00[ASN][1000 genomes]
rs12089292	1.00[ASN][1000 genomes]
rs13376565	1.00[ASN][1000 genomes]
rs16838510	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16838519	1.00[ASN][1000 genomes]
rs55776075	1.00[ASN][1000 genomes]
rs57724793	1.00[ASN][1000 genomes]
rs59706360	0.82[AFR][1000 genomes]
rs61121337	1.00[ASN][1000 genomes]
rs72756792	1.00[ASN][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:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:239699400-239703200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr1:239699600-239703600	Enhancers	Colon Smooth Muscle	Colon
3	chr1:239700400-239704000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr1:239700600-239703400	Enhancers	ES-I3 Cell Line	embryonic stem cell
5	chr1:239700800-239703800	Enhancers	Primary hematopoietic stem cells	blood
6	chr1:239701400-239711800	Weak transcription	Fetal Intestine Small	intestine
7	chr1:239702000-239711600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr1:239702600-239703200	Enhancers	Fetal Muscle Trunk	muscle
9	chr1:239702600-239703400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr1:239702800-239705800	Weak transcription	Ovary	ovary
11	chr1:239703000-239703200	Enhancers	Right Atrium	heart

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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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