Variant report

Variant	rs1028642
Chromosome Location	chr1:168877594-168877595
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:168810232..168812979-chr1:168875337..168877595,2	MCF-7	breast:
2	chr1:168875686..168878179-chr1:168887956..168889828,4	MCF-7	breast:
3	chr1:168875687..168879217-chr1:168890314..168893830,4	MCF-7	breast:
4	chr1:168875296..168877977-chr1:169036497..169038451,2	MCF-7	breast:
5	chr1:168873646..168880836-chr1:169073615..169079308,19	MCF-7	breast:
6	chr1:168872791..168875183-chr1:168876465..168878195,2	MCF-7	breast:
7	chr1:168875814..168878079-chr1:168940706..168942941,2	MCF-7	breast:
8	chr1:168876521..168880322-chr1:168881956..168884576,3	MCF-7	breast:
9	chr1:168872707..168877840-chr1:169073874..169079301,15	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000252987	Chromatin interaction
ENSG00000143153	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1022789	0.87[ASN][1000 genomes]
rs10489363	0.87[CHB][hapmap]
rs10489364	0.85[JPT][hapmap]
rs10800395	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10919011	0.86[JPT][hapmap]
rs10919013	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12133503	0.86[CHB][hapmap]
rs12134708	0.87[CHB][hapmap]
rs12562255	0.86[CHB][hapmap]
rs1407477	1.00[CHB][hapmap]
rs1570335	0.82[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs16861737	0.86[CHB][hapmap]
rs1885558	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2065129	0.86[JPT][hapmap]
rs2146204	0.82[CEU][hapmap]
rs2146205	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2419395	0.87[CHB][hapmap]
rs34408738	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4142003	0.80[ASN][1000 genomes]
rs4656166	0.87[ASN][1000 genomes]
rs6427157	0.89[ASN][1000 genomes]
rs6427159	0.89[ASN][1000 genomes]
rs6657987	0.81[JPT][hapmap]
rs6670083	0.82[CHB][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs6670091	0.88[ASN][1000 genomes]
rs72695643	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7514435	0.82[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs7518480	0.87[CHB][hapmap]
rs7527859	0.89[ASN][1000 genomes]
rs7537225	0.86[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869415	chr1:168467284-169153863	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
2	nsv437258	chr1:168824111-168890420	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 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	chr1:168875000-168878000	Enhancers	HepG2	liver
2	chr1:168875400-168877600	Enhancers	Stomach Mucosa	stomach
3	chr1:168875800-168877800	Enhancers	Sigmoid Colon	Sigmoid Colon
4	chr1:168876400-168878000	Enhancers	Fetal Lung	lung
5	chr1:168876400-168878200	Enhancers	Fetal Kidney	kidney
6	chr1:168876600-168878000	Enhancers	Adipose Nuclei	Adipose
7	chr1:168876800-168877600	Enhancers	HSMMtube	muscle
8	chr1:168877000-168877800	Enhancers	Fetal Heart	heart
9	chr1:168877200-168877600	Enhancers	Skeletal Muscle Female	skeletal muscle
10	chr1:168877200-168878000	Weak transcription	Pancreas	Pancrea
11	chr1:168877200-168881400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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