Variant report

Variant	rs2478179
Chromosome Location	chr1:92112170-92112171
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:92100975..92102811-chr1:92111120..92112791,2	K562	blood:
2	chr1:92111029..92113050-chr1:92113299..92116260,2	K562	blood:
3	chr1:92111551..92113673-chr1:92116483..92118232,2	K562	blood:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12034795	1.00[JPT][hapmap]
rs1887054	0.87[CEU][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];0.83[TSI][hapmap];0.88[EUR][1000 genomes]
rs2078051	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2078052	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2078053	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2478167	0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2478172	0.91[CEU][hapmap]
rs2493200	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2493202	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3767583	1.00[JPT][hapmap]
rs4658106	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6672952	0.81[EUR][1000 genomes]
rs751422	0.87[CEU][hapmap];0.88[EUR][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	nsv1009560	chr1:91897078-92270781	Enhancers Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats 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	14 gene(s)	inside rSNPs	diseases
2	nsv1012864	chr1:92067100-92827761	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
3	nsv535029	chr1:92067100-92827761	Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	esv2763581	chr1:92068967-92203803	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv1014990	chr1:92084142-92206674	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
6	nsv530438	chr1:92091957-92827760	Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:92109600-92119600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr1:92110000-92112400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr1:92110600-92113800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr1:92110800-92115400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr1:92111000-92114800	Weak transcription	NHLF	lung
6	chr1:92111000-92115800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr1:92111200-92112400	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr1:92111200-92116400	Weak transcription	Fetal Kidney	kidney
9	chr1:92111200-92116600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr1:92111400-92113200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
11	chr1:92111400-92113800	Enhancers	Primary T cells from cord blood	blood
12	chr1:92111400-92116200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr1:92111600-92113600	Enhancers	Primary T helper cells PMA-I stimulated	--
14	chr1:92111600-92113800	Enhancers	Primary T helper cells fromperipheralblood	blood
15	chr1:92111600-92114600	Weak transcription	NHDF-Ad	bronchial
16	chr1:92111600-92116600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr1:92111600-92117000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr1:92111800-92116400	Weak transcription	K562	blood
19	chr1:92111800-92116600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr1:92112000-92114000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
21	chr1:92112000-92117000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links