Variant report

Variant	rs12402732
Chromosome Location	chr1:171192580-171192581
allele	C/T
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:39)

rs_ID	r²[population]
rs10912616	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12065544	0.97[ASN][1000 genomes]
rs12403890	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12720462	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16864174	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16864177	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16864194	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16864216	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1987921	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1987944	1.00[ASN][1000 genomes]
rs2020863	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2049920	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2064077	0.93[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2072755	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2075988	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2103537	0.82[ASN][1000 genomes]
rs2179106	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28369845	0.83[EUR][1000 genomes]
rs28369881	0.83[EUR][1000 genomes]
rs28369891	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28369914	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3861947	0.97[ASN][1000 genomes]
rs4073692	0.84[ASN][1000 genomes]
rs4073693	0.88[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4622096	0.91[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4631734	0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4916273	0.86[AFR][1000 genomes]
rs56370691	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57305992	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61815361	0.83[EUR][1000 genomes]
rs61815363	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61815421	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61815423	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61815424	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61815425	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61815427	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72714167	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7535210	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7551934	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001228	chr1:170885787-171452579	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
2	esv14617	chr1:171016086-171726961	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv1005902	chr1:171036690-171254916	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
4	nsv535203	chr1:171036690-171254916	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
5	esv10193	chr1:171128845-171414611	Weak transcription Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv831882	chr1:171166224-171326083	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:171189200-171192600	Enhancers	Muscle Satellite Cultured Cells	--
2	chr1:171189800-171193400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr1:171190000-171192600	Enhancers	HMEC	breast
4	chr1:171190200-171192600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr1:171190200-171192600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr1:171190200-171192600	Enhancers	Fetal Muscle Leg	muscle
7	chr1:171190200-171192600	Enhancers	NHLF	lung
8	chr1:171190200-171192800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr1:171190200-171193200	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr1:171190200-171193400	Enhancers	NHEK	skin
11	chr1:171190200-171193800	Enhancers	Fetal Lung	lung
12	chr1:171190400-171193800	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr1:171190600-171192600	Enhancers	ES-I3 Cell Line	embryonic stem cell
14	chr1:171190600-171192600	Enhancers	H1 Cell Line	embryonic stem cell
15	chr1:171190600-171192800	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr1:171190600-171193000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr1:171190600-171193400	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr1:171190600-171194000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr1:171190600-171194200	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr1:171190800-171192600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr1:171190800-171192600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr1:171190800-171192600	Enhancers	Adipose Nuclei	Adipose
23	chr1:171190800-171192600	Enhancers	Fetal Stomach	stomach
24	chr1:171190800-171192800	Enhancers	iPS-15b Cell Line	embryonic stem cell
25	chr1:171190800-171193000	Enhancers	H9 Cell Line	embryonic stem cell
26	chr1:171190800-171193000	Enhancers	Stomach Mucosa	stomach
27	chr1:171191000-171192600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
28	chr1:171191400-171192800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr1:171191400-171197200	Weak transcription	Fetal Kidney	kidney
30	chr1:171191800-171195600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr1:171192000-171192600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr1:171192000-171192600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr1:171192200-171192600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
34	chr1:171192200-171192600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
35	chr1:171192200-171192600	Enhancers	Rectal Smooth Muscle	rectum
36	chr1:171192400-171192600	Enhancers	Small Intestine	intestine

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