Variant report

Variant	rs16938435
Chromosome Location	chr9:21502923-21502924
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10491567	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10757224	0.99[ASN][1000 genomes]
rs10811535	1.00[CEU][hapmap]
rs10811542	0.80[EUR][1000 genomes]
rs10811545	0.80[EUR][1000 genomes]
rs10811546	0.92[CHB][hapmap]
rs10811549	0.98[EUR][1000 genomes]
rs10811551	1.00[CEU][hapmap];0.93[CHB][hapmap];0.96[EUR][1000 genomes]
rs10811555	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10811556	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10811557	0.92[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes]
rs10811562	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10811563	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10811564	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10964981	1.00[CEU][hapmap]
rs10964982	1.00[CEU][hapmap]
rs10964985	1.00[CEU][hapmap]
rs10964989	0.80[EUR][1000 genomes]
rs10964990	0.85[CHB][hapmap]
rs10965002	1.00[CEU][hapmap]
rs10965005	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs10965008	1.00[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10965019	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs10965021	0.92[CHB][hapmap]
rs10965022	0.86[CHB][hapmap]
rs10965023	0.86[CHB][hapmap]
rs10965024	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs10965029	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10965031	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10965034	0.91[EUR][1000 genomes]
rs10965036	0.91[EUR][1000 genomes]
rs10965037	0.93[CHB][hapmap];0.85[JPT][hapmap];0.83[ASN][1000 genomes]
rs10965040	0.98[ASN][1000 genomes]
rs10965041	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10965050	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10965053	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10965054	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10965059	0.87[EUR][1000 genomes]
rs10965063	0.80[EUR][1000 genomes]
rs1125488	0.93[EUR][1000 genomes]
rs11543888	0.85[EUR][1000 genomes]
rs12156640	1.00[CEU][hapmap]
rs12236551	0.86[CHB][hapmap]
rs12375583	0.91[EUR][1000 genomes]
rs12376959	0.83[EUR][1000 genomes]
rs12377379	0.87[EUR][1000 genomes]
rs12378286	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12378990	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12379382	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12379709	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12379721	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1332188	0.91[EUR][1000 genomes]
rs1412396	0.92[CHB][hapmap]
rs1412397	0.86[CHB][hapmap]
rs16938384	1.00[CEU][hapmap]
rs16938433	0.91[EUR][1000 genomes]
rs16938434	0.83[ASN][1000 genomes]
rs16938448	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2039380	0.93[EUR][1000 genomes]
rs55683539	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs55835613	0.87[EUR][1000 genomes]
rs55938615	0.80[EUR][1000 genomes]
rs56122777	0.87[EUR][1000 genomes]
rs56337511	0.91[EUR][1000 genomes]
rs7026731	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7032680	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7034161	1.00[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7041183	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7048384	0.93[CHB][hapmap]
rs72703410	0.89[EUR][1000 genomes]
rs72703411	0.96[EUR][1000 genomes]
rs72703417	0.91[EUR][1000 genomes]
rs72703418	0.91[EUR][1000 genomes]
rs72703419	0.91[EUR][1000 genomes]
rs72703426	0.91[EUR][1000 genomes]
rs72703442	0.89[AMR][1000 genomes]
rs72703445	0.87[EUR][1000 genomes]
rs72703447	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72703448	0.80[AMR][1000 genomes]
rs72703449	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72703450	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7861480	0.85[CEU][hapmap]
rs9644855	0.95[AMR][1000 genomes];0.91[EUR][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	nsv892724	chr9:20690244-21517302	Genic enhancers Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	153 gene(s)	inside rSNPs	diseases
2	nsv466297	chr9:21391698-21507589	Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv613758	chr9:21391698-21507589	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1030064	chr9:21455760-21524674	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA miRNA	111 gene(s)	inside rSNPs	diseases
5	nsv1020445	chr9:21464962-21524162	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA miRNA	109 gene(s)	inside rSNPs	diseases
6	nsv1020232	chr9:21464962-21524999	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA miRNA	110 gene(s)	inside rSNPs	diseases
7	nsv892740	chr9:21471499-21551513	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA miRNA	110 gene(s)	inside rSNPs	diseases
8	nsv1031432	chr9:21472601-21608774	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	122 gene(s)	inside rSNPs	diseases
9	nsv540085	chr9:21472601-21608774	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	122 gene(s)	inside rSNPs	diseases
10	esv2757326	chr9:21499624-21526526	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region miRNA	105 gene(s)	inside rSNPs	diseases
11	esv2759680	chr9:21499624-21526526	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region miRNA	105 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21466000-21527600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:21471600-21505600	Weak transcription	HUVEC	blood vessel
3	chr9:21477000-21505800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr9:21479600-21505000	Weak transcription	NHLF	lung
5	chr9:21481800-21504800	Weak transcription	NHDF-Ad	bronchial
6	chr9:21481800-21505000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr9:21482000-21504800	Weak transcription	NHEK	skin
8	chr9:21483200-21504800	Weak transcription	HMEC	breast
9	chr9:21494200-21503600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr9:21494800-21527600	Weak transcription	Gastric	stomach
11	chr9:21499200-21503600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr9:21500000-21503000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr9:21500800-21504800	Weak transcription	NH-A	brain
14	chr9:21500800-21505000	Weak transcription	Fetal Intestine Small	intestine
15	chr9:21500800-21505200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr9:21501000-21503800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr9:21501000-21505400	Weak transcription	Stomach Mucosa	stomach
18	chr9:21501000-21505800	Weak transcription	Duodenum Mucosa	Duodenum
19	chr9:21501200-21503200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr9:21501400-21504600	Weak transcription	A549	lung
21	chr9:21502200-21503000	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr9:21502200-21503200	Genic enhancers	Osteobl	bone
23	chr9:21502200-21505200	Enhancers	Muscle Satellite Cultured Cells	--
24	chr9:21502400-21503600	Weak transcription	Placenta	Placenta
25	chr9:21502600-21504200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr9:21502800-21503200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr9:21502800-21505400	Weak transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links