Variant report

Variant	rs3111258
Chromosome Location	chr1:211420933-211420934
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:211419705..211422951-chr1:211432200..211435408,3	MCF-7	breast:
2	chr1:211416396..211423224-chr1:211428831..211433927,10	K562	blood:

Variant related genes	Relation type
ENSG00000117625	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1055565	0.81[CEU][hapmap]
rs10779552	0.85[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs10779553	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1084981	0.81[CEU][hapmap];0.81[CHB][hapmap]
rs10863882	0.81[ASN][1000 genomes]
rs10863883	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10863884	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10863888	0.81[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.87[MEX][hapmap]
rs11119716	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11580084	0.85[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11811405	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12027724	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12116749	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs12118279	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12403576	0.94[ASN][1000 genomes]
rs12744021	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1533217	0.81[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs1663522	0.81[CEU][hapmap]
rs2095753	0.81[ASN][1000 genomes]
rs3111244	0.80[ASN][1000 genomes]
rs3111246	0.81[ASN][1000 genomes]
rs3111252	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3111255	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3111257	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3120782	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs3120789	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3125832	0.80[ASN][1000 genomes]
rs3125854	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35426013	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3738199	0.85[CEU][hapmap];0.95[CHB][hapmap];0.84[CHD][hapmap]
rs3767377	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3767378	0.84[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4131375	0.83[ASN][1000 genomes]
rs4366377	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4406705	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4951520	0.83[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.93[ASN][1000 genomes]
rs4951523	0.85[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.83[MEX][hapmap]
rs4951736	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6689078	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs6696938	0.90[ASN][1000 genomes]
rs6700747	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6702366	0.84[ASN][1000 genomes]
rs7520989	0.84[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs7538692	0.93[ASN][1000 genomes]
rs7538812	0.82[ASN][1000 genomes]
rs7550702	0.85[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.83[MEX][hapmap]
rs784379	0.81[CEU][hapmap];0.81[CHB][hapmap]
rs784382	0.81[CEU][hapmap];0.81[CHB][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3111258	C1orf74	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:211412800-211421400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:211419600-211421800	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr1:211419800-211421800	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr1:211419800-211421800	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr1:211420000-211421000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr1:211420000-211422800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr1:211420000-211423200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr1:211420200-211421200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr1:211420200-211421400	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr1:211420400-211421400	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr1:211420400-211421800	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr1:211420800-211421600	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr1:211420800-211421600	Enhancers	iPS-20b Cell Line	embryonic stem cell

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