Variant report

Variant	rs9804101
Chromosome Location	chr1:169136389-169136390
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10158265	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10158861	0.86[AMR][1000 genomes]
rs10919065	0.85[ASN][1000 genomes]
rs10919066	0.83[ASN][1000 genomes]
rs10919088	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10919102	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11808274	1.00[YRI][hapmap]
rs1200154	0.84[ASN][1000 genomes]
rs1200157	0.85[ASN][1000 genomes]
rs1200159	0.84[ASN][1000 genomes]
rs12023291	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12025233	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12026996	0.92[CEU][hapmap];0.82[AMR][1000 genomes]
rs12029853	0.91[CEU][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes]
rs12032783	0.86[AMR][1000 genomes]
rs12033078	0.86[AMR][1000 genomes]
rs12036968	0.91[YRI][hapmap]
rs12037211	0.92[CEU][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12038609	0.92[CEU][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes]
rs12043489	0.92[CEU][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes]
rs12043545	0.86[AMR][1000 genomes]
rs12045202	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12047231	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12129969	0.86[CHB][hapmap]
rs12724494	0.89[CHB][hapmap]
rs1415928	0.92[CEU][hapmap];0.84[AMR][1000 genomes]
rs1589113	0.91[CEU][hapmap];0.84[AMR][1000 genomes]
rs16828170	1.00[YRI][hapmap]
rs2268048	0.92[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs2901029	0.84[ASN][1000 genomes]
rs3766058	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3766089	0.92[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs3820058	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56341747	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58585501	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61806986	0.86[AMR][1000 genomes]
rs61808865	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61808914	0.86[AMR][1000 genomes]
rs61808915	0.86[AMR][1000 genomes]
rs6664272	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6685556	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7521338	0.86[AMR][1000 genomes]
rs9633334	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs968304	0.85[ASN][1000 genomes]
rs9988595	0.83[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9988604	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869415	chr1:168467284-169153863	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
2	esv3522071	chr1:168978325-169339044	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	esv3522072	chr1:168978325-169339044	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
4	nsv831858	chr1:169022383-169179068	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
5	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169091800-169137600	Weak transcription	Esophagus	oesophagus
2	chr1:169096600-169137400	Weak transcription	Fetal Stomach	stomach
3	chr1:169100800-169141400	Weak transcription	Fetal Muscle Leg	muscle
4	chr1:169101000-169137000	Weak transcription	Primary T cells from cord blood	blood
5	chr1:169104800-169142800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr1:169116400-169139400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr1:169118000-169137000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr1:169121000-169137000	Weak transcription	Psoas Muscle	Psoas
9	chr1:169121000-169140800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr1:169121200-169141200	Weak transcription	Left Ventricle	heart
11	chr1:169121800-169143000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr1:169122800-169136400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr1:169124800-169138800	Weak transcription	Primary B cells from cord blood	blood
14	chr1:169127200-169137200	Weak transcription	Duodenum Mucosa	Duodenum
15	chr1:169128200-169137000	Weak transcription	Aorta	Aorta
16	chr1:169130400-169195200	Weak transcription	Pancreas	Pancrea
17	chr1:169131000-169138800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr1:169131000-169139000	Weak transcription	Fetal Intestine Small	intestine
19	chr1:169131400-169139000	Weak transcription	Ovary	ovary
20	chr1:169131400-169149400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr1:169131600-169137600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr1:169132800-169139000	Weak transcription	Brain Hippocampus Middle	brain
23	chr1:169133000-169137000	Weak transcription	A549	lung
24	chr1:169135600-169139800	Weak transcription	Primary T cells fromperipheralblood	blood

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