Variant report

Variant	rs6858417
Chromosome Location	chr4:152973020-152973021
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10033529	0.96[ASN][1000 genomes]
rs10033840	0.96[ASN][1000 genomes]
rs13435686	0.90[ASN][1000 genomes]
rs17028449	0.96[ASN][1000 genomes]
rs28574816	0.96[ASN][1000 genomes]
rs28868301	0.96[ASN][1000 genomes]
rs72968646	1.00[ASN][1000 genomes]
rs72968650	1.00[ASN][1000 genomes]
rs72968655	1.00[ASN][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	nsv432644	chr4:152635395-153023402	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv880341	chr4:152861685-153110256	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv931416	chr4:152877808-153440553	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv461679	chr4:152935555-152992741	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv595734	chr4:152935555-152992741	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:152967200-152973400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr4:152967600-152973200	Weak transcription	Thymus	Thymus
3	chr4:152967600-152974600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr4:152967600-152977000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr4:152971000-152975200	Enhancers	Fetal Thymus	thymus
6	chr4:152972200-152973200	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr4:152972200-152973400	Enhancers	Dnd41	blood
8	chr4:152972800-152973600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr4:152972800-152974600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
10	chr4:152973000-152974200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr4:152973000-152974200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr4:152973000-152974400	Enhancers	Osteobl	bone
13	chr4:152973000-152975000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
14	chr4:152973000-152975000	Enhancers	Primary T helper memory cells from peripheral blood 1	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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