Variant report

Variant	rs13219518
Chromosome Location	chr6:38447870-38447871
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:38443341..38445345-chr6:38445490..38448475,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10947738	0.87[EUR][1000 genomes]
rs10947739	0.86[CEU][hapmap];0.91[JPT][hapmap];0.88[EUR][1000 genomes]
rs3923809	0.95[CEU][hapmap];0.82[EUR][1000 genomes]
rs4236060	0.86[CEU][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes]
rs4714163	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6920488	0.95[CEU][hapmap];0.87[JPT][hapmap];0.90[EUR][1000 genomes]
rs9349077	1.00[YRI][hapmap]
rs9349087	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9349088	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9369057	1.00[YRI][hapmap]
rs9369062	0.88[AFR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv885820	chr6:38166511-38468887	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1022724	chr6:38332368-38454527	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1030889	chr6:38374812-38450432	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38396400-38449800	Weak transcription	Primary B cells from cord blood	blood
2	chr6:38437000-38455400	Weak transcription	Gastric	stomach
3	chr6:38440200-38449800	Weak transcription	Primary B cells from peripheral blood	blood
4	chr6:38444600-38496200	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr6:38444800-38449800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr6:38445000-38448600	Weak transcription	Fetal Brain Female	brain
7	chr6:38445400-38452600	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr6:38445600-38448600	Weak transcription	Brain Germinal Matrix	brain
9	chr6:38445600-38448600	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr6:38446000-38448400	Weak transcription	Fetal Brain Male	brain
11	chr6:38446000-38449200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr6:38446200-38453400	Weak transcription	Primary T cells from cord blood	blood
13	chr6:38446600-38455400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr6:38446800-38449200	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr6:38446800-38449800	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr6:38447000-38448000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr6:38447000-38448400	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr6:38447000-38449000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr6:38447200-38448000	Enhancers	Primary hematopoietic stem cells	blood
20	chr6:38447200-38449200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr6:38447200-38449200	Weak transcription	Lung	lung
22	chr6:38447200-38449400	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr6:38447200-38449400	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr6:38447400-38449000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr6:38447400-38449600	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr6:38447600-38448000	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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