Variant report

Variant	rs73603658
Chromosome Location	chr6:149434559-149434560
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	STAT5A	chr6:149434042-149434573	GM12878	blood:	n/a	chr6:149434043-149434050
2	NFIC	chr6:149431536-149434647	GM12878	blood:	n/a	n/a
3	MTA3	chr6:149433488-149434643	GM12878	blood:	n/a	n/a
4	YY1	chr6:149434086-149434589	GM12878	blood:	n/a	n/a
5	MTA3	chr6:149434018-149434607	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149434484..149436638-chr6:149440096..149443619,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000219487	TF binding region

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11968376	1.00[AMR][1000 genomes]
rs11968394	1.00[AMR][1000 genomes]
rs3813677	1.00[AMR][1000 genomes]
rs4077989	1.00[AMR][1000 genomes]
rs56707372	1.00[AMR][1000 genomes]
rs57567299	1.00[AMR][1000 genomes]
rs57568826	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57834128	0.88[AFR][1000 genomes]
rs58920839	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61166835	1.00[AMR][1000 genomes]
rs61671574	1.00[AMR][1000 genomes]
rs73603643	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73603644	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73603646	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73603649	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73603652	1.00[AFR][1000 genomes]
rs73603663	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73603664	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032319	chr6:149271433-149550525	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv538470	chr6:149271433-149550525	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv1024776	chr6:149398652-149654593	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149429200-149437200	Weak transcription	Stomach Smooth Muscle	stomach
2	chr6:149430200-149437200	Weak transcription	Brain Substantia Nigra	brain
3	chr6:149430600-149437200	Weak transcription	Brain Hippocampus Middle	brain
4	chr6:149431600-149434800	Enhancers	Primary B cells from peripheral blood	blood
5	chr6:149432000-149434600	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr6:149432800-149436400	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr6:149433200-149443400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr6:149433600-149434600	Enhancers	Monocytes-CD14+_RO01746	blood
9	chr6:149433800-149436400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr6:149433800-149436600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr6:149433800-149444400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr6:149434000-149434600	Enhancers	Primary T cells fromperipheralblood	blood
13	chr6:149434000-149435000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
14	chr6:149434000-149435000	ZNF genes & repeats	Aorta	Aorta
15	chr6:149434000-149435600	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr6:149434000-149437000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr6:149434200-149434800	Enhancers	Spleen	Spleen
18	chr6:149434400-149435400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr6:149434400-149435600	Enhancers	GM12878-XiMat	blood
20	chr6:149434400-149436400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr6:149434400-149437000	Weak transcription	Primary T helper cells fromperipheralblood	blood

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