Variant report

Variant	rs11924964
Chromosome Location	chr3:139061844-139061845
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:139048508..139050684-chr3:139059942..139062793,2	K562	blood:
2	chr3:138552280..138555729-chr3:139059158..139062062,3	K562	blood:
3	chr3:139061660..139066893-chr3:139105523..139110764,11	K562	blood:
4	chr3:139058653..139060158-chr3:139060593..139062603,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000252245	Chromatin interaction
ENSG00000051382	Chromatin interaction
ENSG00000184432	Chromatin interaction
ENSG00000248932	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11914638	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11928018	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12107249	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1599926	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.89[TSI][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs182409	1.00[JPT][hapmap]
rs2233817	0.85[CEU][hapmap]
rs2278577	0.87[CEU][hapmap]
rs2307030	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34994114	0.94[ASN][1000 genomes]
rs3772874	0.87[CEU][hapmap]
rs56176652	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57459537	0.81[ASN][1000 genomes]
rs57490542	0.94[ASN][1000 genomes]
rs60077646	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61613815	0.94[ASN][1000 genomes]
rs6439863	0.87[CEU][hapmap]
rs6767503	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6770374	0.91[EUR][1000 genomes]
rs6773840	1.00[ASN][1000 genomes]
rs6774691	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6781318	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6788896	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6797945	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72986758	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7373302	0.87[CEU][hapmap]
rs7612306	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7622961	1.00[JPT][hapmap]
rs7649535	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.89[TSI][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7651618	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.89[TSI][hapmap]
rs9756378	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9879736	1.00[CEU][hapmap]
rs9879748	0.86[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005158	chr3:139001736-139073011	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv877543	chr3:139021139-139327261	Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	nsv4034	chr3:139034976-139080133	Active TSS Genic enhancers Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv1003154	chr3:139060841-139788752	ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv536729	chr3:139060841-139788752	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:139048200-139062400	Weak transcription	Right Atrium	heart
2	chr3:139058600-139062400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr3:139058600-139062600	Weak transcription	Hela-S3	cervix
4	chr3:139058800-139062400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr3:139058800-139062400	Weak transcription	HMEC	breast
6	chr3:139058800-139062600	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr3:139059000-139062400	Weak transcription	HSMM	muscle
8	chr3:139060400-139062600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr3:139060800-139062000	Weak transcription	K562	blood
10	chr3:139061800-139063200	Active TSS	Primary T killer memory cells from peripheral blood	blood

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