Variant report

Variant	rs61845939
Chromosome Location	chr10:28574302-28574303
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:28546305..28548729-chr10:28573221..28575070,2	MCF-7	breast:
2	chr10:28554627..28557349-chr10:28572149..28574726,2	MCF-7	breast:
3	chr10:28570371..28575406-chr10:28590076..28593528,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150054	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11006932	0.80[AMR][1000 genomes]
rs11006955	0.86[AMR][1000 genomes]
rs11006996	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11007002	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12357385	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12357685	1.00[AFR][1000 genomes]
rs61845938	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61845943	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7090006	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1041555	chr10:28419399-29304934	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv1037863	chr10:28419399-29378871	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv540521	chr10:28419399-29378871	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
5	nsv1040916	chr10:28558982-28579141	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
6	nsv437663	chr10:28562647-28585496	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1036270	chr10:28563995-28574327	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv1045247	chr10:28563995-28574624	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv1039546	chr10:28563995-28579141	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
10	nsv515548	chr10:28564732-28579969	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28550400-28582600	Weak transcription	Primary T cells fromperipheralblood	blood
2	chr10:28569000-28578400	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr10:28571000-28580200	Weak transcription	Lung	lung
4	chr10:28571400-28578200	Weak transcription	Primary monocytes fromperipheralblood	blood
5	chr10:28571400-28584600	Weak transcription	Fetal Intestine Small	intestine
6	chr10:28571600-28575400	Weak transcription	HSMMtube	muscle
7	chr10:28571600-28580200	Weak transcription	Esophagus	oesophagus
8	chr10:28571600-28580200	Weak transcription	Left Ventricle	heart
9	chr10:28571600-28583800	Weak transcription	Fetal Muscle Leg	muscle
10	chr10:28571800-28575400	Weak transcription	Stomach Smooth Muscle	stomach
11	chr10:28571800-28580200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr10:28571800-28587800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr10:28572000-28580200	Weak transcription	Psoas Muscle	Psoas
14	chr10:28572000-28580400	Weak transcription	Aorta	Aorta
15	chr10:28572200-28577600	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr10:28572400-28575600	Weak transcription	Colon Smooth Muscle	Colon
17	chr10:28572400-28582200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr10:28572800-28574400	Enhancers	HepG2	liver
19	chr10:28573400-28574600	Enhancers	Primary T helper cells fromperipheralblood	blood
20	chr10:28573400-28575400	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr10:28573600-28574600	Weak transcription	Stomach Mucosa	stomach
22	chr10:28573600-28575400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
23	chr10:28573600-28580200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr10:28573600-28581000	Weak transcription	Rectal Smooth Muscle	rectum
25	chr10:28573600-28582600	Weak transcription	Primary T cells from cord blood	blood
26	chr10:28573600-28582600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr10:28573800-28581000	Weak transcription	Fetal Heart	heart
28	chr10:28573800-28587400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr10:28574000-28575600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
30	chr10:28574000-28580000	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr10:28574200-28574400	Enhancers	Pancreas	Pancrea
32	chr10:28574200-28575400	Weak transcription	Primary T helper cells PMA-I stimulated	--

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