Variant report

Variant	rs6926001
Chromosome Location	chr6:4688260-4688261
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:4682974..4686881-chr6:4686986..4689567,5	K562	blood:
2	chr6:4686580..4688742-chr6:4786418..4788333,2	K562	blood:
3	chr6:4687535..4690499-chr6:4691352..4693513,3	K562	blood:
4	chr6:4687974..4688722-chr6:4699245..4700235,2	MCF-7	breast:
5	chr6:4686682..4689633-chr6:4775001..4777998,2	MCF-7	breast:
6	chr6:4687463..4689972-chr6:4776640..4778169,2	MCF-7	breast:
7	chr6:4687332..4689780-chr6:4704649..4707466,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000153046	Chromatin interaction
ENSG00000236336	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs4960016	1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4960020	1.00[CHB][hapmap];0.85[JPT][hapmap];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4960022	0.94[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs907835	1.00[CEU][hapmap];0.93[CHB][hapmap];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9405761	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	esv3366530	chr6:4471528-4865322	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv528627	chr6:4614058-4731340	Flanking Bivalent TSS/Enh Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv883416	chr6:4666878-4690760	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6926001	C6orf146	cis	cerebellum	SCAN

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4669000-4695600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr6:4687600-4688400	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr6:4687600-4688400	Enhancers	HMEC	breast
4	chr6:4687800-4688400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr6:4688000-4688400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr6:4688000-4688400	Enhancers	HUVEC	blood vessel
7	chr6:4688000-4688400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
8	chr6:4688000-4688400	Enhancers	NH-A	brain
9	chr6:4688000-4688400	Enhancers	NHDF-Ad	bronchial
10	chr6:4688000-4688400	Enhancers	NHLF	lung
11	chr6:4688000-4688400	Enhancers	Osteobl	bone
12	chr6:4688000-4688600	Active TSS	A549	lung
13	chr6:4688000-4688800	Enhancers	Placenta Amnion	Placenta Amnion
14	chr6:4688000-4688800	Enhancers	HSMM	muscle
15	chr6:4688000-4689000	Flanking Active TSS	K562	blood
16	chr6:4688200-4688400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr6:4688200-4688400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr6:4688200-4688400	Enhancers	Muscle Satellite Cultured Cells	--
19	chr6:4688200-4688400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr6:4688200-4688400	Flanking Active TSS	NHEK	skin
21	chr6:4688200-4688600	Active TSS	Primary B cells from cord blood	blood
22	chr6:4688200-4688800	Bivalent Enhancer	HepG2	liver
23	chr6:4688200-4689000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr6:4688200-4689000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr6:4688200-4689000	Enhancers	Primary hematopoietic stem cells short term culture	blood
26	chr6:4688200-4689000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr6:4688200-4689000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr6:4688200-4689200	Flanking Active TSS	Hela-S3	cervix

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