Variant report

Variant	rs4449405
Chromosome Location	chr4:85485329-85485330
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:85483839..85485531-chr4:85502643..85504902,2	MCF-7	breast:
2	chr4:85479030..85482088-chr4:85483227..85486153,3	K562	blood:
3	chr4:85483371..85486524-chr4:85499401..85503831,3	MCF-7	breast:
4	chr4:85483142..85485554-chr4:85491357..85493082,2	MCF-7	breast:
5	chr4:85484577..85487410-chr4:85489203..85491080,2	K562	blood:

Variant related genes	Relation type
ENSG00000163624	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1020278	0.85[CEU][hapmap];0.83[MEX][hapmap];0.81[EUR][1000 genomes]
rs10446695	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs10776519	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11097023	1.00[CEU][hapmap];0.82[CHB][hapmap];0.82[CHD][hapmap];0.97[GIH][hapmap];0.94[JPT][hapmap];0.96[MEX][hapmap];0.95[TSI][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11099651	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11099652	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11099653	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11725539	1.00[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11733870	0.83[AMR][1000 genomes]
rs11929910	0.84[CEU][hapmap];0.83[JPT][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12509774	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12648523	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13102661	0.91[GIH][hapmap];0.83[MEX][hapmap]
rs1372971	0.89[GIH][hapmap];0.92[MEX][hapmap]
rs1443074	0.91[GIH][hapmap]
rs2868914	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2868915	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2868916	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2868917	0.81[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2868919	0.85[CEU][hapmap];0.92[GIH][hapmap];0.83[JPT][hapmap];0.87[MEX][hapmap];0.82[TSI][hapmap]
rs2868920	0.83[JPT][hapmap];0.83[MEX][hapmap]
rs35227341	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35909314	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4533768	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6535544	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6829806	0.89[GIH][hapmap];0.83[MEX][hapmap]
rs7657036	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7657224	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7659340	0.85[CEU][hapmap];0.83[JPT][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7677285	0.88[CEU][hapmap];0.82[JPT][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7678115	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7678268	0.81[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7699871	0.94[ASN][1000 genomes]
rs974130	0.82[CHB][hapmap]
rs9784491	0.89[GIH][hapmap];0.83[MEX][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4449405	IBSP	cis	parietal	SCAN
rs4449405	NKX6-1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:85483000-85489600	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr4:85484000-85485800	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr4:85484000-85485800	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr4:85484200-85485400	Enhancers	ES-I3 Cell Line	embryonic stem cell
5	chr4:85484200-85485400	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr4:85484200-85486800	Enhancers	H1 Cell Line	embryonic stem cell
7	chr4:85484200-85491400	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr4:85484400-85486800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr4:85484600-85485400	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr4:85484600-85485400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr4:85484800-85485400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr4:85484800-85488000	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr4:85485000-85485400	Enhancers	HSMMtube	muscle
14	chr4:85485200-85486000	Enhancers	Placenta	Placenta

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