Variant report

Variant	rs13069424
Chromosome Location	chr3:46525508-46525509
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs13061783	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13062049	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13070959	0.89[EUR][1000 genomes]
rs13076697	0.89[EUR][1000 genomes]
rs13083022	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13093282	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13099992	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13353428	0.98[EUR][1000 genomes]
rs17078930	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17286758	0.92[EUR][1000 genomes]
rs28539486	0.92[EUR][1000 genomes]
rs28595844	0.89[EUR][1000 genomes]
rs28617572	0.88[EUR][1000 genomes]
rs28670418	0.89[EUR][1000 genomes]
rs28687398	0.86[EUR][1000 genomes]
rs34167705	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34227041	0.89[EUR][1000 genomes]
rs34668230	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34767161	0.89[EUR][1000 genomes]
rs34850133	0.89[EUR][1000 genomes]
rs35056755	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35082490	0.92[EUR][1000 genomes]
rs35124447	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35740565	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35760835	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35864396	0.89[EUR][1000 genomes]
rs3934895	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55689943	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56106816	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56288081	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6442001	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6442003	0.92[EUR][1000 genomes]
rs6442004	0.92[EUR][1000 genomes]
rs66627456	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs66702674	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs66826527	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs67091203	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67222447	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs67228693	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs67305272	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs67647205	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6769817	0.89[EUR][1000 genomes]
rs6770016	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6770574	0.89[EUR][1000 genomes]
rs6772291	0.92[EUR][1000 genomes]
rs6778305	0.89[EUR][1000 genomes]
rs6778415	0.88[EUR][1000 genomes]
rs6783443	0.92[EUR][1000 genomes]
rs6792420	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs67962987	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6801427	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6804179	0.89[EUR][1000 genomes]
rs68095529	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs71327070	0.86[ASN][1000 genomes]
rs71622507	0.86[EUR][1000 genomes]
rs73067779	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73069915	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73069952	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7624932	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7625793	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7626061	0.92[EUR][1000 genomes]
rs7628435	0.92[EUR][1000 genomes]
rs7648827	0.92[EUR][1000 genomes]
rs9808967	0.89[EUR][1000 genomes]
rs9846026	0.92[EUR][1000 genomes]
rs9865911	0.92[EUR][1000 genomes]
rs9866206	0.92[EUR][1000 genomes]
rs9867359	0.86[EUR][1000 genomes]
rs9871405	0.88[EUR][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	nsv1014624	chr3:46463424-46549188	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
2	nsv1013306	chr3:46469014-46698538	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv1009892	chr3:46496775-46546918	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	nsv536553	chr3:46496775-46546918	Bivalent Enhancer Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46511800-46530200	Weak transcription	Right Atrium	heart
2	chr3:46513400-46525800	Weak transcription	Left Ventricle	heart
3	chr3:46522400-46527400	Enhancers	HSMM	muscle
4	chr3:46522800-46530200	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr3:46522800-46530400	Weak transcription	Gastric	stomach
6	chr3:46523400-46526000	Weak transcription	HSMMtube	muscle
7	chr3:46523400-46529400	Weak transcription	Brain Substantia Nigra	brain
8	chr3:46523600-46526200	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr3:46524400-46526400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr3:46524400-46528400	Enhancers	Fetal Intestine Large	intestine
11	chr3:46524600-46525800	Enhancers	Right Ventricle	heart
12	chr3:46524600-46528400	Enhancers	Fetal Intestine Small	intestine
13	chr3:46524800-46526400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr3:46524800-46527600	Enhancers	Fetal Muscle Leg	muscle
15	chr3:46524800-46530400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr3:46525000-46526000	Weak transcription	Stomach Mucosa	stomach
17	chr3:46525000-46527400	Enhancers	Skeletal Muscle Male	skeletal muscle
18	chr3:46525000-46530600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr3:46525200-46526800	Enhancers	Spleen	Spleen
20	chr3:46525200-46530000	Weak transcription	NH-A	brain
21	chr3:46525400-46526600	Active TSS	Pancreas	Pancrea
22	chr3:46525400-46527400	Enhancers	Fetal Muscle Trunk	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links