Variant report

Variant	rs671671
Chromosome Location	chr11:106180430-106180431
allele	G/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	PBX3	chr11:106179786-106180462	SK-N-SH	brain:	n/a	n/a
2	EP300	chr11:106179612-106180433	SK-N-SH	brain:	n/a	n/a
3	GATA3	chr11:106179643-106180498	SK-N-SH	brain:	n/a	n/a
4	EP300	chr11:106179861-106180443	SK-N-SH_RA	brain:	n/a	n/a
5	STAT3	chr11:106180407-106180537	MCF10A-Er-Src	breast:	n/a	n/a
6	EP300	chr11:106179870-106180437	SK-N-SH_RA	brain:	n/a	n/a
7	STAT3	chr11:106180314-106180514	MCF10A-Er-Src	breast:	n/a	n/a
8	TCF12	chr11:106179855-106180512	SK-N-SH	brain:	n/a	n/a
9	EP300	chr11:106179910-106180506	SK-N-SH	brain:	n/a	n/a
10	GATA3	chr11:106179773-106180468	SK-N-SH	brain:	n/a	n/a
11	TCF12	chr11:106179868-106180576	SK-N-SH	brain:	n/a	n/a

Variant related genes	Relation type
ENSG00000255065	TF binding region

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10450645	1.00[EUR][1000 genomes]
rs1512430	0.82[ASN][1000 genomes]
rs1512432	0.82[ASN][1000 genomes]
rs17105468	1.00[EUR][1000 genomes]
rs17105525	1.00[EUR][1000 genomes]
rs1940757	1.00[EUR][1000 genomes]
rs1940784	1.00[EUR][1000 genomes]
rs34555310	0.82[ASN][1000 genomes]
rs4332487	1.00[EUR][1000 genomes]
rs4427534	1.00[EUR][1000 genomes]
rs4531437	1.00[EUR][1000 genomes]
rs4754145	1.00[EUR][1000 genomes]
rs4755139	1.00[EUR][1000 genomes]
rs482942	1.00[CHB][hapmap];0.88[YRI][hapmap];0.82[AFR][1000 genomes]
rs494766	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs497271	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs501777	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs501889	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs509930	0.81[AFR][1000 genomes]
rs516531	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs527993	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs529861	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs535189	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs579770	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58379581	1.00[EUR][1000 genomes]
rs586279	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs591957	1.00[CHB][hapmap];0.88[YRI][hapmap];0.82[AFR][1000 genomes]
rs601181	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs606871	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs608643	1.00[CHB][hapmap];0.84[YRI][hapmap];0.82[AFR][1000 genomes]
rs629793	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs645748	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs646242	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs653411	0.81[AFR][1000 genomes]
rs659327	1.00[ASN][1000 genomes]
rs660564	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs661099	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs664549	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs669266	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs682320	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs684242	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048381	chr11:105945117-106561574	Weak transcription Enhancers Active TSS Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv898358	chr11:105999580-106182251	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv2754854	chr11:106092790-106245790	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1054471	chr11:106168484-106427713	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:106175600-106181800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr11:106179400-106180800	Enhancers	Dnd41	blood

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