Variant report

Variant	rs12471725
Chromosome Location	chr2:10958119-10958120
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr2:10957980-10958130	A549	lung:	n/a	n/a
2	CTCF	chr2:10958080-10958230	NB4	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr2:10958052..10959606-chr2:10959996..10962869,2	MCF-7	breast:
2	chr2:10951755..10953479-chr2:10956167..10958157,2	K562	blood:
3	chr2:10951471..10954573-chr2:10958000..10962008,6	MCF-7	breast:
4	chr2:10849900..10852301-chr2:10958041..10960505,2	MCF-7	breast:

Variant related genes	Relation type
RNU7-176P	TF binding region
ENSG00000143870	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs1198844	0.94[CHD][hapmap]
rs12463454	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[TSI][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12471762	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.81[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12472302	0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12474895	0.91[ASN][1000 genomes]
rs12475790	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12621237	0.91[ASN][1000 genomes]
rs12623588	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.91[ASN][1000 genomes]
rs13429247	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.81[ASN][1000 genomes]
rs13431633	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs13431852	0.81[ASN][1000 genomes]
rs13432104	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs17365181	1.00[ASW][hapmap];0.85[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17365209	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17365216	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17455708	0.85[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs17456162	0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17456225	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2306922	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2357815	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2884289	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.81[ASN][1000 genomes]
rs3856465	0.95[CHD][hapmap];0.82[JPT][hapmap]
rs3856466	0.85[ASN][1000 genomes]
rs55648622	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs55675740	0.85[ASN][1000 genomes]
rs55688940	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55770944	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55771723	0.81[ASN][1000 genomes]
rs55863332	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55968911	0.81[ASN][1000 genomes]
rs55975412	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56025654	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56093996	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs56121730	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56140102	0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs56141717	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56143168	0.85[ASN][1000 genomes]
rs56147885	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs56162318	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56260452	0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56263234	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56264212	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs56268818	0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56321198	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56344711	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59737886	0.81[ASN][1000 genomes]
rs72777393	0.85[ASN][1000 genomes]
rs72779425	0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs72779433	0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs72779445	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72779451	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72779452	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72779453	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72779459	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72779464	0.81[ASN][1000 genomes]
rs72779466	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72779469	0.81[ASN][1000 genomes]
rs72779470	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72779474	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72779478	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7571007	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7576898	0.81[ASN][1000 genomes]
rs7587453	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7590368	0.81[ASN][1000 genomes]

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:10953600-10959200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr2:10953600-10960800	Weak transcription	Brain Substantia Nigra	brain
3	chr2:10953600-10960800	Weak transcription	Left Ventricle	heart
4	chr2:10953600-10968200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr2:10953800-10960800	Weak transcription	Spleen	Spleen
6	chr2:10955000-10960600	Weak transcription	Stomach Mucosa	stomach
7	chr2:10955200-10958600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr2:10955400-10958800	Weak transcription	HUVEC	blood vessel
9	chr2:10955400-10968600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr2:10955600-10960800	Weak transcription	Adipose Nuclei	Adipose
11	chr2:10957600-10959000	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr2:10958000-10958400	Weak transcription	H9 Cell Line	embryonic stem cell

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