Variant report

Variant	rs9496509
Chromosome Location	chr6:143391443-143391444
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:143385359..143387235-chr6:143389845..143392358,2	MCF-7	breast:
2	chr6:143380960..143386461-chr6:143387320..143395252,12	K562	blood:
3	chr6:143265303..143267500-chr6:143390954..143392814,2	K562	blood:
4	chr6:143389762..143391667-chr6:143399155..143401032,2	K562	blood:
5	chr6:143391282..143393684-chr6:143394820..143397153,2	K562	blood:

Variant related genes	Relation type
ENSG00000146416	Chromatin interaction
ENSG00000010818	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs28532630	1.00[AMR][1000 genomes]
rs6927594	0.87[YRI][hapmap];1.00[AMR][1000 genomes]
rs6937139	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs9321890	0.86[AFR][1000 genomes]
rs9484698	0.85[YRI][hapmap];0.86[AFR][1000 genomes]
rs9484699	0.85[YRI][hapmap];0.86[AFR][1000 genomes]
rs9484702	1.00[AMR][1000 genomes]
rs9484703	1.00[AMR][1000 genomes]
rs9484704	1.00[AMR][1000 genomes]
rs9484707	1.00[AMR][1000 genomes]
rs9484708	1.00[AMR][1000 genomes]
rs9496508	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496510	1.00[AMR][1000 genomes]
rs9496512	1.00[AMR][1000 genomes]
rs9496513	1.00[AMR][1000 genomes]
rs9496517	1.00[AMR][1000 genomes]
rs9496519	1.00[AMR][1000 genomes]
rs9496520	1.00[AMR][1000 genomes]
rs9496522	0.87[YRI][hapmap];1.00[AMR][1000 genomes]
rs9496526	1.00[AMR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9496509	TPM2	trans	lymphoblastoid	seeQTL

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143382600-143426800	Weak transcription	Ovary	ovary
2	chr6:143382800-143394800	Weak transcription	Primary hematopoietic stem cells	blood
3	chr6:143384200-143394600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr6:143384200-143407400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:143384200-143407600	Weak transcription	Psoas Muscle	Psoas
6	chr6:143385600-143392000	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr6:143385600-143394600	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr6:143386000-143403800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr6:143386200-143396400	Weak transcription	Left Ventricle	heart
10	chr6:143386400-143431800	Weak transcription	NHEK	skin
11	chr6:143386800-143391800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr6:143386800-143395200	Weak transcription	HMEC	breast
13	chr6:143389400-143391800	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr6:143389600-143393400	Weak transcription	NH-A	brain
15	chr6:143389600-143400000	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr6:143389600-143437000	Weak transcription	HSMM	muscle
17	chr6:143389800-143391800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr6:143389800-143400000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr6:143389800-143418800	Weak transcription	Osteobl	bone
20	chr6:143390200-143394800	Enhancers	Liver	Liver
21	chr6:143390400-143394800	Weak transcription	Fetal Intestine Large	intestine
22	chr6:143390600-143392000	Weak transcription	Fetal Intestine Small	intestine
23	chr6:143391000-143391800	Enhancers	Small Intestine	intestine
24	chr6:143391200-143394800	Weak transcription	HepG2	liver

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