Variant report

Variant	rs7739880
Chromosome Location	chr6:11148349-11148350
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10601	0.86[CEU][hapmap]
rs13849	0.81[CEU][hapmap]
rs1803710	0.93[CEU][hapmap]
rs2146344	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2208840	0.86[CEU][hapmap]
rs2327336	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2327338	0.85[CEU][hapmap]
rs3035	0.85[EUR][1000 genomes]
rs4711193	0.91[CEU][hapmap]
rs4711194	0.91[CEU][hapmap]
rs4713228	0.86[CEU][hapmap]
rs6456946	0.86[EUR][1000 genomes]
rs6456968	0.85[CEU][hapmap]
rs6923556	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6923725	0.85[CEU][hapmap]
rs6935824	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7746976	0.92[CEU][hapmap]
rs7750787	0.85[CEU][hapmap]
rs7751344	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7759674	0.86[EUR][1000 genomes]
rs9368595	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs941982	0.82[AMR][1000 genomes]
rs9468537	0.85[CEU][hapmap]
rs960944	0.86[CEU][hapmap]
rs960945	0.85[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11129000-11154200	Weak transcription	Fetal Intestine Small	intestine
2	chr6:11136000-11150400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr6:11136000-11154400	Weak transcription	Left Ventricle	heart
4	chr6:11136600-11154400	Weak transcription	Primary T cells from cord blood	blood
5	chr6:11137800-11154000	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr6:11144400-11149800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr6:11145000-11172800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr6:11145200-11150800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr6:11146000-11154000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr6:11146800-11154200	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr6:11147000-11153800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr6:11147200-11151200	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr6:11147200-11151200	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr6:11147400-11154200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr6:11148200-11148600	ZNF genes & repeats	Right Atrium	heart

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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