Variant report

Variant	rs11919968
Chromosome Location	chr3:85940200-85940201
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10511069	1.00[AMR][1000 genomes]
rs11921652	1.00[YRI][hapmap]
rs11924201	1.00[AMR][1000 genomes]
rs13320595	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13325188	0.87[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13353520	1.00[AMR][1000 genomes]
rs17023257	0.83[AMR][1000 genomes]
rs17023295	1.00[AMR][1000 genomes]
rs17023810	1.00[ASW][hapmap];0.94[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17024695	0.89[LWK][hapmap];1.00[MKK][hapmap];0.88[YRI][hapmap]
rs1900791	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs28611113	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4473548	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs56787903	1.00[AMR][1000 genomes]
rs57661808	1.00[AMR][1000 genomes]
rs58770804	1.00[AMR][1000 genomes]
rs59605482	1.00[AMR][1000 genomes]
rs6549066	1.00[AMR][1000 genomes]
rs6762825	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6764756	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6796380	0.83[YRI][hapmap]
rs72906501	1.00[AMR][1000 genomes]
rs72908509	1.00[AMR][1000 genomes]
rs72908511	1.00[AMR][1000 genomes]
rs72908512	1.00[AMR][1000 genomes]
rs72908516	1.00[AMR][1000 genomes]
rs72908517	1.00[AMR][1000 genomes]
rs72908522	1.00[AMR][1000 genomes]
rs72908582	1.00[AMR][1000 genomes]
rs72908587	1.00[AMR][1000 genomes]
rs72908602	1.00[AMR][1000 genomes]
rs72910511	1.00[AMR][1000 genomes]
rs72910559	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72912429	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72912437	1.00[AMR][1000 genomes]
rs72912471	1.00[AMR][1000 genomes]
rs72912474	1.00[AMR][1000 genomes]
rs72914830	1.00[AMR][1000 genomes]
rs72914833	1.00[AMR][1000 genomes]
rs72914835	1.00[AMR][1000 genomes]
rs72914844	1.00[AMR][1000 genomes]
rs72914849	1.00[AMR][1000 genomes]
rs7622132	0.87[YRI][hapmap]
rs7636187	0.89[YRI][hapmap]
rs7649694	1.00[AMR][1000 genomes]
rs7650035	1.00[AMR][1000 genomes]
rs9309996	0.87[YRI][hapmap]
rs9811856	1.00[YRI][hapmap]
rs9816884	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs9840424	0.94[YRI][hapmap]
rs9851502	0.89[YRI][hapmap]
rs9856802	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9863493	0.87[YRI][hapmap]
rs9872154	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9872176	0.94[YRI][hapmap]
rs9874223	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9876097	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9880094	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532629	chr3:85763873-86608579	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv877106	chr3:85814620-86006210	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv877107	chr3:85814620-86037162	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv877108	chr3:85870363-86037162	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
5	nsv877109	chr3:85892098-86006210	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
6	nsv877110	chr3:85892098-86037162	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
7	nsv877111	chr3:85892098-86044224	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a
8	nsv460754	chr3:85917289-86006210	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
9	nsv460755	chr3:85917289-86006210	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	n/a
10	nsv590912	chr3:85917289-86006210	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
11	nsv470727	chr3:85917289-86044224	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a
12	nsv590913	chr3:85917289-86044224	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85937800-85940400	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr3:85938400-85940200	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr3:85938400-85940600	Enhancers	H1 Cell Line	embryonic stem cell
4	chr3:85939400-85940200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:85939600-85940200	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr3:85939600-85940600	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr3:85940000-85949000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr3:85940200-85942000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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