Variant report

Variant	rs9496377
Chromosome Location	chr6:142748250-142748251
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:142733339..142736237-chr6:142747446..142749492,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10223419	0.90[AFR][1000 genomes]
rs13437159	1.00[AFR][1000 genomes]
rs28489749	0.90[AFR][1000 genomes]
rs9321864	0.90[AFR][1000 genomes]
rs9321868	0.90[AFR][1000 genomes]
rs9484622	0.90[AFR][1000 genomes]
rs9484623	0.90[AFR][1000 genomes]
rs9484624	0.90[AFR][1000 genomes]
rs9484625	0.90[AFR][1000 genomes]
rs9484626	0.90[AFR][1000 genomes]
rs9484637	1.00[AFR][1000 genomes]
rs9484642	0.81[AFR][1000 genomes]
rs9484643	0.90[AFR][1000 genomes]
rs9496335	0.90[AFR][1000 genomes]
rs9496337	0.90[AFR][1000 genomes]
rs9496339	0.90[AFR][1000 genomes]
rs9496340	0.90[AFR][1000 genomes]
rs9496342	0.90[AFR][1000 genomes]
rs9496344	0.90[AFR][1000 genomes]
rs9496345	0.90[AFR][1000 genomes]
rs9496348	0.90[AFR][1000 genomes]
rs9496352	0.90[AFR][1000 genomes]
rs9496353	0.90[AFR][1000 genomes]
rs9496366	0.90[AFR][1000 genomes]
rs9496370	0.90[AFR][1000 genomes]
rs9496380	1.00[AFR][1000 genomes]
rs9496382	1.00[AFR][1000 genomes]
rs9496389	0.90[AFR][1000 genomes]
rs9496390	0.90[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv830825	chr6:142585242-142752575	Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142718000-142763200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr6:142721600-142749200	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr6:142733800-142758000	Weak transcription	Stomach Smooth Muscle	stomach
4	chr6:142735200-142760200	Weak transcription	Esophagus	oesophagus
5	chr6:142735200-142765400	Weak transcription	Hela-S3	cervix
6	chr6:142735800-142765400	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr6:142737600-142765600	Weak transcription	Duodenum Mucosa	Duodenum
8	chr6:142737800-142765800	Weak transcription	Fetal Brain Male	brain
9	chr6:142738000-142774200	Weak transcription	NHEK	skin
10	chr6:142738800-142749600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr6:142739000-142764800	Weak transcription	NHLF	lung
12	chr6:142743200-142755800	Weak transcription	Placenta	Placenta
13	chr6:142743200-142769200	Weak transcription	HMEC	breast
14	chr6:142743400-142761600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr6:142746000-142748400	Strong transcription	Primary hematopoietic stem cells	blood
16	chr6:142746000-142749000	Strong transcription	A549	lung
17	chr6:142746000-142751600	Strong transcription	HepG2	liver
18	chr6:142746200-142750600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr6:142746400-142749200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr6:142746400-142750000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr6:142746600-142749200	Strong transcription	Fetal Lung	lung
22	chr6:142747400-142749200	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr6:142747400-142750000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr6:142747800-142750000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr6:142748000-142750000	ZNF genes & repeats	Fetal Intestine Small	intestine
26	chr6:142748000-142782600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr6:142748200-142748800	Weak transcription	HUVEC	blood vessel
28	chr6:142748200-142749200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr6:142748200-142749200	Strong transcription	HSMM	muscle
30	chr6:142748200-142749600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr6:142748200-142750000	Strong transcription	Liver	Liver

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