Variant report

Variant	rs6920488
Chromosome Location	chr6:38444040-38444041
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:38406164..38407857-chr6:38442817..38445173,2	K562	blood:
2	chr6:38443341..38445345-chr6:38445490..38448475,2	MCF-7	breast:
3	chr6:38441969..38444159-chr6:38445659..38447643,2	K562	blood:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10947738	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10947739	0.90[CEU][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13219518	0.95[CEU][hapmap];0.87[JPT][hapmap];0.90[EUR][1000 genomes]
rs2745384	0.91[CHB][hapmap]
rs3923809	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4236060	0.90[CEU][hapmap]
rs4714160	0.81[AFR][1000 genomes]
rs4714162	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4714163	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9296249	0.82[CHB][hapmap]
rs9349077	0.82[CHB][hapmap]
rs9349081	0.80[AFR][1000 genomes]
rs9349087	0.91[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs9349088	0.94[EUR][1000 genomes]
rs9369057	0.91[CHB][hapmap]
rs9369062	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9380753	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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	nsv602958	chr6:38362024-38446634	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	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:20 , 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	chr6:38412200-38445600	Weak transcription	Primary T cells from cord blood	blood
3	chr6:38437000-38455400	Weak transcription	Gastric	stomach
4	chr6:38440200-38449800	Weak transcription	Primary B cells from peripheral blood	blood
5	chr6:38443000-38444600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr6:38443200-38445000	Enhancers	Fetal Brain Female	brain
7	chr6:38443200-38445400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr6:38443200-38445600	Enhancers	Brain Germinal Matrix	brain
9	chr6:38443400-38444600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr6:38443400-38445000	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr6:38443400-38447400	Enhancers	iPS-15b Cell Line	embryonic stem cell
12	chr6:38443600-38444800	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr6:38443600-38444800	Weak transcription	Fetal Brain Male	brain
14	chr6:38443600-38446000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr6:38443600-38446200	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr6:38443600-38446600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
17	chr6:38443800-38444200	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr6:38443800-38445000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr6:38444000-38444800	Enhancers	iPS-20b Cell Line	embryonic stem cell
20	chr6:38444000-38445200	Enhancers	HUES48 Cell Line	embryonic stem cell

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