Variant report

Variant	rs6432058
Chromosome Location	chr2:10225241-10225242
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10177872	1.00[ASN][1000 genomes]
rs10929632	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11886661	1.00[ASN][1000 genomes]
rs12992149	0.85[EUR][1000 genomes]
rs13400128	1.00[ASN][1000 genomes]
rs3935840	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4302193	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4321336	1.00[ASN][1000 genomes]
rs4485541	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4569449	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4669527	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4669528	0.84[EUR][1000 genomes]
rs6432060	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72786623	1.00[ASN][1000 genomes]
rs72786624	1.00[ASN][1000 genomes]
rs7587317	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7587529	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7602408	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1011125	chr2:9996740-10293803	Enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
2	nsv1011689	chr2:10023891-10293803	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
3	nsv828297	chr2:10109299-10236332	Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv1007965	chr2:10154960-10276125	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
5	nsv1014790	chr2:10156968-10274855	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
6	nsv999019	chr2:10157762-10273232	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
7	nsv873633	chr2:10175442-10266563	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
8	nsv1010706	chr2:10189219-10266995	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6432058	CYS1	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:10221000-10231400	Weak transcription	Lung	lung
2	chr2:10221200-10226400	Weak transcription	Pancreas	Pancrea
3	chr2:10222400-10228200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr2:10223800-10225600	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr2:10224400-10226000	Bivalent Enhancer	Fetal Kidney	kidney
6	chr2:10224600-10225800	Bivalent Enhancer	HepG2	liver
7	chr2:10224600-10227200	Weak transcription	Stomach Smooth Muscle	stomach
8	chr2:10224600-10227200	Weak transcription	A549	lung
9	chr2:10224800-10227600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr2:10224800-10229600	Weak transcription	GM12878-XiMat	blood
11	chr2:10225200-10225400	Bivalent Enhancer	Fetal Intestine Small	intestine
12	chr2:10225200-10225600	Bivalent Enhancer	Fetal Lung	lung
13	chr2:10225200-10226400	Enhancers	Fetal Intestine Large	intestine

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Input of quick search could be:

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

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