Variant report

Variant	rs878983
Chromosome Location	chr2:20277748-20277749
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:20277155..20282170-chr2:20290246..20293600,5	MCF-7	breast:
2	chr2:20270221..20272820-chr2:20277699..20279389,2	K562	blood:
3	chr2:20211608..20214323-chr2:20275915..20278206,2	MCF-7	breast:
4	chr2:20248757..20252967-chr2:20277280..20285105,10	MCF-7	breast:
5	chr2:20276643..20279020-chr2:20317223..20319754,2	K562	blood:
6	chr2:20276734..20283198-chr2:20287354..20293786,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000068697	Chromatin interaction
ENSG00000223734	Chromatin interaction
ENSG00000132031	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10169811	0.85[CEU][hapmap];0.87[CHD][hapmap]
rs10171384	0.85[CEU][hapmap]
rs10195803	0.85[CEU][hapmap];0.87[CHD][hapmap]
rs10199614	0.85[CEU][hapmap]
rs10208355	0.85[CEU][hapmap]
rs1028054	0.85[CEU][hapmap]
rs1028055	0.85[CEU][hapmap];0.87[CHD][hapmap]
rs11096639	0.85[CEU][hapmap]
rs11673841	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11674251	0.86[ASW][hapmap];1.00[MKK][hapmap]
rs11675411	0.81[AFR][1000 genomes]
rs11679737	1.00[ASW][hapmap];0.85[CEU][hapmap];0.83[CHB][hapmap];0.90[CHD][hapmap];0.83[GIH][hapmap];0.93[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.91[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs11682837	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11685443	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11685788	0.85[CEU][hapmap]
rs11689431	0.86[ASW][hapmap]
rs11689490	0.90[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11690530	0.90[CEU][hapmap];0.83[CHB][hapmap];0.87[JPT][hapmap];0.91[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs11692546	0.90[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs11694170	0.86[ASW][hapmap];0.83[CHD][hapmap]
rs11900576	0.85[CEU][hapmap]
rs13005386	0.81[CEU][hapmap]
rs13391566	0.85[CEU][hapmap]
rs1513830	0.86[ASW][hapmap];1.00[MKK][hapmap]
rs1513831	0.86[ASW][hapmap];0.83[CHD][hapmap]
rs1554007	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3731673	0.86[ASW][hapmap];0.89[MKK][hapmap]
rs62112180	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6531203	0.85[CEU][hapmap]
rs6531204	0.90[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6531205	0.90[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6531206	0.85[CEU][hapmap]
rs6531207	0.85[CEU][hapmap]
rs6708655	0.90[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6709349	1.00[ASW][hapmap];0.90[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6749952	0.82[EUR][1000 genomes]
rs7556745	0.81[CEU][hapmap]
rs7558628	0.85[CEU][hapmap];0.85[CHD][hapmap]
rs7561381	0.85[CEU][hapmap]
rs7572608	0.85[CEU][hapmap]
rs7582437	0.85[CEU][hapmap]
rs7583420	0.85[CEU][hapmap]
rs7609013	0.85[CEU][hapmap]
rs907864	0.85[CEU][hapmap]

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:20272000-20280600	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr2:20273000-20279600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr2:20273200-20281800	Weak transcription	Hela-S3	cervix
4	chr2:20274200-20281800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr2:20274400-20278000	Enhancers	HepG2	liver
6	chr2:20274600-20280600	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr2:20275000-20278000	Weak transcription	Left Ventricle	heart
8	chr2:20275000-20280000	Weak transcription	K562	blood
9	chr2:20275000-20280200	Weak transcription	Ovary	ovary
10	chr2:20275000-20280200	Weak transcription	Pancreas	Pancrea
11	chr2:20275000-20280400	Weak transcription	Spleen	Spleen
12	chr2:20275200-20280600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr2:20277200-20277800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr2:20277400-20282400	Enhancers	Placenta	Placenta

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