Variant report

Variant	rs9496354
Chromosome Location	chr6:142692078-142692079
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:142683592..142686831-chr6:142690528..142693685,3	MCF-7	breast:
2	chr6:142681414..142683380-chr6:142691600..142694541,2	MCF-7	breast:
3	chr6:142686552..142689660-chr6:142691331..142695100,3	MCF-7	breast:
4	chr6:142621406..142625298-chr6:142688620..142694485,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112414	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10080722	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10080956	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9321867	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484631	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484632	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484633	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496356	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496357	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496358	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496360	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496361	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496365	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496367	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496368	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496371	1.00[AMR][1000 genomes]
rs9496372	1.00[AMR][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:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142679400-142693200	Weak transcription	Hela-S3	cervix
2	chr6:142681000-142695200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr6:142682600-142694600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:142682800-142693600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr6:142682800-142694600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:142683200-142693400	Weak transcription	HSMM	muscle
7	chr6:142683400-142693800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr6:142683600-142693200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:142683800-142693200	Weak transcription	HMEC	breast
10	chr6:142683800-142693400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr6:142683800-142693400	Weak transcription	Fetal Intestine Large	intestine
12	chr6:142683800-142693400	Weak transcription	Fetal Intestine Small	intestine
13	chr6:142683800-142693600	Weak transcription	Placenta	Placenta
14	chr6:142688800-142693600	Weak transcription	Osteobl	bone
15	chr6:142689200-142692800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr6:142689400-142693600	Weak transcription	NHLF	lung
17	chr6:142689400-142696000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:142691400-142692200	Strong transcription	Liver	Liver
19	chr6:142691400-142692400	Strong transcription	HUVEC	blood vessel
20	chr6:142691400-142692800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr6:142691400-142693600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr6:142691600-142695200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr6:142691800-142692200	Strong transcription	A549	lung
24	chr6:142692000-142692800	Weak transcription	HepG2	liver
25	chr6:142692000-142695600	Weak transcription	Fetal Lung	lung

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