Variant report

Variant	rs56106069
Chromosome Location	chr7:21619733-21619734
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10499531	0.88[EUR][1000 genomes]
rs10950861	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11765753	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11766011	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11768411	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11768728	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11773760	0.85[EUR][1000 genomes]
rs11978567	0.88[EUR][1000 genomes]
rs12666258	0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12667349	0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12668100	0.94[ASN][1000 genomes]
rs12669590	0.85[EUR][1000 genomes]
rs12670130	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12673164	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17144781	0.87[EUR][1000 genomes]
rs17745898	0.87[EUR][1000 genomes]
rs35758178	0.87[EUR][1000 genomes]
rs3810898	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3827658	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55750845	0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs55844287	0.88[EUR][1000 genomes]
rs55937657	0.87[EUR][1000 genomes]
rs56214809	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs56356943	0.89[ASN][1000 genomes]
rs56404110	0.97[ASN][1000 genomes]
rs62441662	0.93[ASN][1000 genomes]
rs62441664	0.92[ASN][1000 genomes]
rs62441665	0.90[ASN][1000 genomes]
rs62441666	0.90[ASN][1000 genomes]
rs62441667	0.93[ASN][1000 genomes]
rs62441668	0.93[ASN][1000 genomes]
rs62441669	0.92[ASN][1000 genomes]
rs62441670	0.94[ASN][1000 genomes]
rs62441672	0.90[ASN][1000 genomes]
rs62441676	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs62441677	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs62441680	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62441682	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62441683	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62441720	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62441726	0.86[EUR][1000 genomes]
rs62447776	0.88[EUR][1000 genomes]
rs62447777	0.88[EUR][1000 genomes]
rs62447778	0.88[EUR][1000 genomes]
rs62447780	0.88[EUR][1000 genomes]
rs62447782	0.88[EUR][1000 genomes]
rs6461585	0.88[EUR][1000 genomes]
rs6461587	0.85[EUR][1000 genomes]
rs6964528	0.93[ASN][1000 genomes]
rs6976617	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6977909	0.97[ASN][1000 genomes]
rs73070433	0.95[EUR][1000 genomes]
rs7788355	0.95[ASN][1000 genomes]
rs7788995	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7797362	0.87[EUR][1000 genomes]
rs7803297	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7805701	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7809703	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8180768	0.87[EUR][1000 genomes]
rs9638787	0.86[EUR][1000 genomes]
rs9639381	0.88[EUR][1000 genomes]
rs9639383	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027302	chr7:21391598-21727016	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv538800	chr7:21391598-21727016	Enhancers Genic enhancers Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1028434	chr7:21468437-21636671	ZNF genes & repeats Strong transcription Bivalent/Poised TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv1023655	chr7:21486485-21727016	Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv538801	chr7:21486485-21727016	ZNF genes & repeats Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv830921	chr7:21489100-21688016	Strong transcription ZNF genes & repeats Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
7	nsv1030577	chr7:21548909-21681379	Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
8	nsv1025634	chr7:21566727-21686272	Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:21591400-21627000	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr7:21601800-21622600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr7:21615000-21622400	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr7:21618200-21620800	Enhancers	Skeletal Muscle Female	skeletal muscle
5	chr7:21618400-21620600	Enhancers	HMEC	breast
6	chr7:21618400-21620800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr7:21618400-21621000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr7:21619000-21620400	Enhancers	Skeletal Muscle Male	skeletal muscle
9	chr7:21619000-21620600	Enhancers	Fetal Heart	heart
10	chr7:21619000-21620800	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr7:21619200-21620000	Enhancers	Liver	Liver
12	chr7:21619200-21620200	Weak transcription	Small Intestine	intestine
13	chr7:21619200-21620400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr7:21619200-21620400	Enhancers	NHEK	skin
15	chr7:21619200-21620600	Enhancers	GM12878-XiMat	blood
16	chr7:21619400-21620200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr7:21619400-21620400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr7:21619400-21620400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr7:21619400-21620400	Enhancers	HSMMtube	muscle
20	chr7:21619400-21620400	Enhancers	NH-A	brain
21	chr7:21619600-21620000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr7:21619600-21620200	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr7:21619600-21620400	Enhancers	Primary hematopoietic stem cells short term culture	blood
24	chr7:21619600-21620400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
25	chr7:21619600-21620800	Enhancers	HUVEC	blood vessel
26	chr7:21619600-21621200	Weak transcription	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links