Variant report

Variant	rs9470878
Chromosome Location	chr6:38406736-38406737
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:38406164..38407857-chr6:38442817..38445173,2	K562	blood:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs12200371	0.92[CEU][hapmap];0.83[TSI][hapmap]
rs12662621	0.92[CEU][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13194990	0.85[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13195992	0.84[AMR][1000 genomes]
rs13199002	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13199426	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs13200492	0.84[AMR][1000 genomes]
rs13206272	0.93[EUR][1000 genomes]
rs13207910	0.85[CEU][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13215683	0.99[EUR][1000 genomes]
rs13217060	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13218556	0.97[EUR][1000 genomes]
rs13220921	0.99[EUR][1000 genomes]
rs34538881	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6900510	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs71544422	0.91[EUR][1000 genomes]
rs7772755	0.85[CEU][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9462433	0.85[CEU][hapmap];0.84[AMR][1000 genomes]
rs9462434	0.93[EUR][1000 genomes]
rs9462435	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs9470876	0.85[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes]
rs9470879	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes]
rs9470884	1.00[CEU][hapmap];0.82[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes]
rs9470887	0.91[CEU][hapmap];0.82[GIH][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 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	nsv885818	chr6:38147745-38436317	Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	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
6	nsv1032358	chr6:38323745-38415855	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	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
8	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
9	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
10	nsv523561	chr6:38395874-38406736	Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38376800-38411400	Weak transcription	Primary T cells from cord blood	blood
2	chr6:38396400-38449800	Weak transcription	Primary B cells from cord blood	blood
3	chr6:38398800-38413800	Weak transcription	Aorta	Aorta
4	chr6:38400400-38410800	Weak transcription	Primary hematopoietic stem cells	blood
5	chr6:38402600-38411200	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr6:38404800-38413800	Weak transcription	Small Intestine	intestine
7	chr6:38405000-38411200	Weak transcription	HSMM	muscle
8	chr6:38405200-38408200	Weak transcription	Ovary	ovary
9	chr6:38405200-38410800	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr6:38405200-38411000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr6:38405200-38411000	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr6:38405200-38411000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr6:38405200-38413800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr6:38405200-38420800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr6:38405400-38410800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr6:38405400-38413000	Weak transcription	Fetal Heart	heart
17	chr6:38406000-38411000	Weak transcription	Sigmoid Colon	Sigmoid Colon

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