Variant report

Variant	rs16841339
Chromosome Location	chr3:99263041-99263042
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10511174	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12636295	0.87[AFR][1000 genomes]
rs13063175	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13064696	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13065138	0.91[EUR][1000 genomes]
rs13070584	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13075415	0.87[AFR][1000 genomes]
rs13084282	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13086098	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13088964	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13098261	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13101237	0.81[ASN][1000 genomes]
rs16841321	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2342465	1.00[JPT][hapmap]
rs34060873	0.91[EUR][1000 genomes]
rs34162135	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34201317	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34468147	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34580839	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34686662	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34964323	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35217023	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35479623	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35722344	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35787037	0.91[EUR][1000 genomes]
rs35892771	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35981855	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs36015505	0.83[EUR][1000 genomes]
rs4928134	0.88[EUR][1000 genomes]
rs4928201	0.92[EUR][1000 genomes]
rs6765840	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71313539	0.87[AFR][1000 genomes]
rs71313551	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71313553	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71313554	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71313556	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7628820	0.87[AFR][1000 genomes]
rs7629812	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7630545	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7649391	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]

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	nsv530026	chr3:98837320-99340537	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv3422853	chr3:99208019-99342748	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99256600-99263800	Weak transcription	Aorta	Aorta
2	chr3:99260800-99264600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr3:99260800-99264800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:99261200-99264800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr3:99261200-99265600	Enhancers	Hela-S3	cervix
6	chr3:99261400-99264400	Enhancers	Muscle Satellite Cultured Cells	--
7	chr3:99261400-99264400	Enhancers	HMEC	breast
8	chr3:99261600-99265600	Enhancers	HSMM	muscle
9	chr3:99261800-99264000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr3:99261800-99264400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr3:99261800-99264400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
12	chr3:99261800-99264400	Enhancers	Osteobl	bone
13	chr3:99261800-99264600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr3:99261800-99264600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr3:99261800-99264600	Enhancers	Adipose Nuclei	Adipose
16	chr3:99261800-99264800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr3:99262000-99264600	Enhancers	NHLF	lung
18	chr3:99262000-99265000	Enhancers	HSMMtube	muscle
19	chr3:99262000-99265400	Enhancers	NHDF-Ad	bronchial
20	chr3:99262200-99263800	Weak transcription	NH-A	brain
21	chr3:99262400-99263400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr3:99262400-99263600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
23	chr3:99262400-99264200	Enhancers	HUVEC	blood vessel
24	chr3:99262600-99263200	Enhancers	Left Ventricle	heart
25	chr3:99262600-99263600	Weak transcription	Placenta	Placenta
26	chr3:99262600-99264000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr3:99262600-99264200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr3:99262800-99263600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr3:99262800-99265400	Enhancers	NHEK	skin
30	chr3:99263000-99263400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr3:99263000-99263400	Weak transcription	Spleen	Spleen
32	chr3:99263000-99264000	Weak transcription	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links