Variant report

Variant	rs1840984
Chromosome Location	chr5:99929353-99929354
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs13876	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs154706	0.97[ASN][1000 genomes]
rs154710	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs154711	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs173552	0.97[ASN][1000 genomes]
rs173553	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs174041	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs184888	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs190326	0.93[ASN][1000 genomes]
rs2370612	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs247933	0.87[ASN][1000 genomes]
rs247934	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs247939	0.84[ASN][1000 genomes]
rs247956	0.97[ASN][1000 genomes]
rs247957	0.80[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs247958	0.97[ASN][1000 genomes]
rs247959	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs247960	0.97[ASN][1000 genomes]
rs247961	0.97[ASN][1000 genomes]
rs247962	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs247963	0.97[ASN][1000 genomes]
rs247964	0.97[ASN][1000 genomes]
rs258540	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs258541	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs258544	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs258545	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs258546	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs26031	0.87[ASN][1000 genomes]
rs26032	0.84[ASN][1000 genomes]
rs26033	0.83[ASN][1000 genomes]
rs32236	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs32237	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs522628	0.81[ASN][1000 genomes]
rs7711475	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv599165	chr5:99469004-100063039	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
2	nsv948969	chr5:99534096-100133827	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	nsv1021183	chr5:99625857-100221426	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
4	nsv882462	chr5:99745767-100060150	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv1025890	chr5:99745775-99936186	Strong transcription Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	nsv1017420	chr5:99745775-100133140	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
7	nsv537825	chr5:99745775-100133140	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
8	nsv1018395	chr5:99827242-100003207	Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
9	nsv823158	chr5:99912491-99960408	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv1023765	chr5:99915011-100733755	Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
11	esv3373847	chr5:99928703-99930826	Weak transcription Enhancers Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:99872400-99931400	Weak transcription	Aorta	Aorta
2	chr5:99873400-99930600	Weak transcription	NH-A	brain
3	chr5:99878400-99930600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr5:99886800-99930200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr5:99895800-99931000	Weak transcription	Fetal Intestine Large	intestine
6	chr5:99896600-99933800	Weak transcription	Primary hematopoietic stem cells	blood
7	chr5:99896800-99931000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr5:99898000-99930800	Weak transcription	Dnd41	blood
9	chr5:99899000-99930000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr5:99899800-99931400	Weak transcription	Adipose Nuclei	Adipose
11	chr5:99905800-99931000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr5:99910600-99929600	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr5:99912600-99930800	Weak transcription	Colon Smooth Muscle	Colon
14	chr5:99914800-99931000	Weak transcription	Stomach Smooth Muscle	stomach
15	chr5:99916800-99931400	Weak transcription	Ovary	ovary
16	chr5:99917400-99931000	Weak transcription	Fetal Muscle Leg	muscle
17	chr5:99919200-99929800	Weak transcription	HUVEC	blood vessel
18	chr5:99920000-99932800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr5:99920200-99930000	Weak transcription	HSMMtube	muscle
20	chr5:99920200-99930000	Weak transcription	Osteobl	bone
21	chr5:99920200-99930800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr5:99920200-99933600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr5:99923200-99930200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr5:99923200-99930200	Weak transcription	HSMM	muscle
25	chr5:99923200-99930400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr5:99929000-99931400	Weak transcription	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links