Variant report

Variant	rs3755625
Chromosome Location	chr3:156029334-156029335
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:156025571..156028067-chr3:156028592..156030728,2	MCF-7	breast:
2	chr3:156026382..156029375-chr3:156031485..156033087,2	K562	blood:

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1027530	1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs10513486	0.87[JPT][hapmap];0.86[TSI][hapmap]
rs12629802	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12630004	0.87[JPT][hapmap];0.81[EUR][1000 genomes]
rs1375925	0.87[JPT][hapmap];0.86[TSI][hapmap]
rs1874952	0.81[JPT][hapmap];0.92[TSI][hapmap];0.81[EUR][1000 genomes]
rs2122419	0.87[JPT][hapmap]
rs2167143	0.94[JPT][hapmap];0.89[TSI][hapmap];0.81[ASN][1000 genomes]
rs3755627	0.81[CEU][hapmap];0.85[CHB][hapmap];0.87[JPT][hapmap]
rs3772231	0.85[CHB][hapmap];0.80[GIH][hapmap];0.81[JPT][hapmap];0.87[LWK][hapmap];0.94[MEX][hapmap];0.94[TSI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3772233	0.87[JPT][hapmap]
rs3772236	0.87[JPT][hapmap]
rs3821415	0.85[CHB][hapmap];0.90[GIH][hapmap];0.94[JPT][hapmap];0.94[MEX][hapmap];0.97[TSI][hapmap]
rs4680258	0.94[JPT][hapmap];0.82[EUR][1000 genomes]
rs4680259	0.81[CEU][hapmap];0.85[CHB][hapmap];0.97[GIH][hapmap];0.94[JPT][hapmap];0.87[LWK][hapmap];0.94[MEX][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6795493	0.87[JPT][hapmap]
rs882089	1.00[CHB][hapmap];0.91[CHD][hapmap];0.94[JPT][hapmap];0.83[TSI][hapmap];0.84[ASN][1000 genomes]
rs9874261	0.85[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]

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	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	nsv877682	chr3:156019961-156077514	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3755625	SMEK3P	trans	parietal	SCAN

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156021400-156035200	Weak transcription	Stomach Mucosa	stomach
2	chr3:156021800-156035800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr3:156022800-156035600	Weak transcription	Brain Anterior Caudate	brain
4	chr3:156026000-156031200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr3:156026000-156031400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr3:156026200-156031200	Weak transcription	HMEC	breast
7	chr3:156026400-156031200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr3:156026400-156031200	Weak transcription	NHEK	skin
9	chr3:156026400-156038400	Weak transcription	Aorta	Aorta
10	chr3:156027800-156029400	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr3:156028200-156032200	Weak transcription	Spleen	Spleen
12	chr3:156029200-156029400	Enhancers	Brain Cingulate Gyrus	brain
13	chr3:156029200-156029400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
14	chr3:156029200-156029800	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr3:156029200-156029800	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr3:156029200-156029800	Enhancers	iPS-20b Cell Line	embryonic stem cell
17	chr3:156029200-156030000	Enhancers	ES-I3 Cell Line	embryonic stem cell
18	chr3:156029200-156030000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
19	chr3:156029200-156030000	Enhancers	H1 Cell Line	embryonic stem cell
20	chr3:156029200-156030000	Enhancers	H9 Cell Line	embryonic stem cell
21	chr3:156029200-156030000	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr3:156029200-156030000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr3:156029200-156030000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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