Variant report

Variant	rs8049943
Chromosome Location	chr16:79839755-79839756
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	chr16:79810120..79812972-chr16:79839145..79841133,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs11863270	1.00[ASN][1000 genomes]
rs11863675	1.00[ASN][1000 genomes]
rs13332329	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13332616	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13334586	1.00[ASN][1000 genomes]
rs13335122	1.00[ASN][1000 genomes]
rs13335374	1.00[ASN][1000 genomes]
rs13335810	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13336598	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13337310	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16951431	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16951578	1.00[ASN][1000 genomes]
rs28468662	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28489853	1.00[ASN][1000 genomes]
rs28497693	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28709974	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4302050	1.00[ASN][1000 genomes]
rs4305033	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4329930	1.00[ASN][1000 genomes]
rs56666506	1.00[ASN][1000 genomes]
rs58774115	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59755459	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61185428	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61435284	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7202646	1.00[ASN][1000 genomes]
rs73572277	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73574088	1.00[ASN][1000 genomes]
rs8046846	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8063890	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9319544	0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9888949	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9923324	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9925223	1.00[ASN][1000 genomes]
rs9927136	1.00[ASN][1000 genomes]
rs9928839	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9931561	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9935211	1.00[ASN][1000 genomes]
rs9936731	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9938074	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9939281	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9939391	1.00[ASN][1000 genomes]
rs9939719	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv573285	chr16:79158182-80127326	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv530714	chr16:79661581-79925435	Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv833296	chr16:79692236-79889727	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv833297	chr16:79732501-79920419	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:79836200-79842400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr16:79838400-79839800	Enhancers	K562	blood
3	chr16:79838800-79839800	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr16:79838800-79839800	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr16:79838800-79840000	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr16:79838800-79840600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr16:79838800-79840600	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr16:79839000-79840400	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr16:79839000-79844200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr16:79839200-79840200	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr16:79839200-79840400	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr16:79839200-79840400	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr16:79839400-79839800	Enhancers	Fetal Muscle Leg	muscle
14	chr16:79839400-79840000	Enhancers	H1 Cell Line	embryonic stem cell
15	chr16:79839400-79840000	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr16:79839400-79840000	Enhancers	NH-A	brain
17	chr16:79839400-79840400	Enhancers	Fetal Stomach	stomach
18	chr16:79839400-79841600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr16:79839400-79841800	Enhancers	Fetal Lung	lung
20	chr16:79839600-79840000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr16:79839600-79840000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr16:79839600-79840400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr16:79839600-79840400	Enhancers	Fetal Thymus	thymus
24	chr16:79839600-79840400	Enhancers	Thymus	Thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links