Variant report

Variant	rs7678307
Chromosome Location	chr4:74580175-74580176
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:74575453..74578433-chr4:74579839..74583465,6	K562	blood:
2	chr4:74578534..74581716-chr4:74582319..74585119,3	K562	blood:
3	chr4:74571666..74575174-chr4:74576525..74580241,3	K562	blood:
4	chr4:74579284..74581900-chr4:74592097..74593663,2	MCF-7	breast:
5	chr4:74575453..74577148-chr4:74579924..74581950,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-IL8-1	chr4:74579883-74580244	XLOC_003573

Variant related genes	Relation type
ENSG00000228277	Chromatin interaction

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10025373	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10029200	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10938089	0.91[ASN][1000 genomes]
rs10938091	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11722921	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11938646	0.91[ASN][1000 genomes]
rs1247605	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1247607	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1247608	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1247611	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1247620	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1247633	0.91[ASN][1000 genomes]
rs1247634	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1247635	0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1247639	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1247687	0.93[ASN][1000 genomes]
rs1247689	0.90[ASN][1000 genomes]
rs12508451	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1261935	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12642878	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12643076	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12643148	0.93[ASN][1000 genomes]
rs12646031	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12649614	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1269764	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1269766	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1358594	0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1406498	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1528910	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1528912	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1528913	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16849877	0.91[YRI][hapmap];0.84[AFR][1000 genomes]
rs16849879	0.84[AFR][1000 genomes]
rs16849881	0.84[AFR][1000 genomes]
rs1729722	0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1745246	0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1951702	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1951703	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.92[ASN][1000 genomes]
rs1951704	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1951705	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]
rs2091587	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2141467	0.93[ASN][1000 genomes]
rs2141468	0.91[ASN][1000 genomes]
rs2178291	0.93[ASN][1000 genomes]
rs2367273	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2886918	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3796679	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4127802	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4259030	0.89[ASN][1000 genomes]
rs4568212	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4637366	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4694633	0.92[ASN][1000 genomes]
rs56785010	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61101665	0.93[ASN][1000 genomes]
rs6446950	0.82[ASN][1000 genomes]
rs6446951	1.00[CEU][hapmap];0.95[CHB][hapmap];0.92[JPT][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6446953	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6446954	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6818711	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6836038	1.00[CEU][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6857472	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs720702	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72865497	0.93[ASN][1000 genomes]
rs72865502	0.93[ASN][1000 genomes]
rs7655660	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7656501	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7656608	0.91[ASN][1000 genomes]
rs7657356	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7657358	0.93[ASN][1000 genomes]
rs7660448	1.00[CHB][hapmap];0.92[JPT][hapmap];0.91[ASN][1000 genomes]
rs7660923	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7665606	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7678280	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7681924	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7681932	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7682745	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7683759	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7689702	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs942051	0.93[ASN][1000 genomes]
rs9991585	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001725	chr4:74354050-74860924	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv530126	chr4:74376622-74843892	Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv1008104	chr4:74468434-74621952	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv1012198	chr4:74487793-74621952	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv537139	chr4:74487793-74621952	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
6	nsv1005231	chr4:74555497-74680079	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:74570600-74581400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:74574600-74583600	Weak transcription	NHDF-Ad	bronchial
3	chr4:74574600-74583800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr4:74575600-74581200	Weak transcription	Hela-S3	cervix
5	chr4:74576200-74581600	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr4:74578000-74581200	Weak transcription	Fetal Thymus	thymus
7	chr4:74578200-74580800	Weak transcription	Dnd41	blood
8	chr4:74578400-74583600	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr4:74578400-74583600	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr4:74578400-74584000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr4:74578600-74581400	Weak transcription	K562	blood
12	chr4:74579200-74580200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr4:74579200-74580200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr4:74579200-74580200	Enhancers	HMEC	breast
15	chr4:74579200-74580200	Enhancers	NHEK	skin
16	chr4:74579600-74581200	Weak transcription	Thymus	Thymus
17	chr4:74580000-74581400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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