Variant report

Variant	rs17648699
Chromosome Location	chr6:37976827-37976828
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs11544071	1.00[AFR][1000 genomes]
rs11751393	0.85[ASN][1000 genomes]
rs11753390	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11753809	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11755262	1.00[ASN][1000 genomes]
rs11755592	0.85[EUR][1000 genomes]
rs11755824	0.85[ASN][1000 genomes]
rs11757086	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs11757622	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11757695	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs11759754	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16890376	0.85[ASN][1000 genomes]
rs17512095	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs17641690	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs17648097	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17648426	0.86[EUR][1000 genomes]
rs17648634	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17649606	0.85[ASN][1000 genomes]
rs17649630	0.85[ASN][1000 genomes]
rs2036124	0.85[EUR][1000 genomes]
rs55753048	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs55898002	0.85[ASN][1000 genomes]
rs56100831	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56136126	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59522592	0.85[ASN][1000 genomes]
rs59810748	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60672298	0.85[ASN][1000 genomes]
rs60943435	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs60977329	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs61125348	0.85[ASN][1000 genomes]
rs61521259	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61705055	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs68148876	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6910601	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6925259	1.00[ASN][1000 genomes]
rs6930340	1.00[ASN][1000 genomes]
rs72849350	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs72849354	0.85[ASN][1000 genomes]
rs72849359	1.00[AFR][1000 genomes]
rs72849369	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs72850806	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72850831	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72850855	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72850856	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72850871	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72850884	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72850893	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72852516	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72852536	1.00[ASN][1000 genomes]
rs72852565	0.85[ASN][1000 genomes]
rs72852588	0.85[ASN][1000 genomes]
rs7739801	0.88[EUR][1000 genomes]
rs7747199	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs7767466	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs994530	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1024016	chr6:37567651-37981590	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1017051	chr6:37789341-38084719	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv538203	chr6:37789341-38084719	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1018711	chr6:37813397-37981590	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1020625	chr6:37833591-38155622	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
8	nsv602956	chr6:37909084-37986489	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	esv2753764	chr6:37963308-37978172	Enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	esv34450	chr6:37963308-38007241	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37956200-37978800	Weak transcription	Primary T cells from cord blood	blood
2	chr6:37960800-37982400	Weak transcription	Rectal Smooth Muscle	rectum
3	chr6:37963000-37977600	Weak transcription	Ovary	ovary
4	chr6:37963000-37984800	Weak transcription	Right Atrium	heart
5	chr6:37963000-37995600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:37965600-37982200	Weak transcription	Psoas Muscle	Psoas
7	chr6:37965800-37979000	Weak transcription	Primary hematopoietic stem cells	blood
8	chr6:37967600-37977600	Weak transcription	Primary B cells from cord blood	blood
9	chr6:37969200-37987800	Weak transcription	Fetal Kidney	kidney
10	chr6:37969400-37977600	Weak transcription	Fetal Intestine Small	intestine
11	chr6:37970800-37984200	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr6:37972400-37983800	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr6:37973800-37977600	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr6:37974000-37977000	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr6:37974400-37977000	Weak transcription	Fetal Stomach	stomach
16	chr6:37974800-37984600	Weak transcription	Placenta	Placenta
17	chr6:37975800-37977200	Enhancers	Rectal Mucosa Donor 31	rectum
18	chr6:37976200-37977200	Enhancers	Fetal Lung	lung
19	chr6:37976200-37977400	Enhancers	Brain Hippocampus Middle	brain
20	chr6:37976400-37977000	Enhancers	Brain Angular Gyrus	brain
21	chr6:37976400-37977200	Enhancers	Brain Cingulate Gyrus	brain
22	chr6:37976400-37978200	Enhancers	Fetal Brain Male	brain
23	chr6:37976600-37977600	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr6:37976600-37977800	Weak transcription	Liver	Liver
25	chr6:37976600-37983000	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr6:37976600-37988400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr6:37976800-37983200	Weak transcription	Colon Smooth Muscle	Colon
28	chr6:37976800-37987800	Weak transcription	Skeletal Muscle Male	skeletal muscle

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