Variant report

Variant	rs1890839
Chromosome Location	chr1:210931769-210931770
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1343143	0.84[AMR][1000 genomes]
rs1770213	0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1770216	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1770219	0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1777243	0.86[JPT][hapmap];0.80[YRI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1777245	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1777246	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1777258	1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1777260	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1777261	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1777264	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1890840	0.86[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1890845	0.91[CHB][hapmap];0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs1890847	0.83[CHB][hapmap]
rs1934628	1.00[CEU][hapmap];0.91[CHB][hapmap];0.92[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1934629	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1934630	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1934636	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2884390	0.91[CHB][hapmap];0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs4405188	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4951564	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4951615	0.86[JPT][hapmap];0.80[YRI][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6658580	0.84[AMR][1000 genomes]
rs6665563	1.00[CEU][hapmap];0.91[CHB][hapmap];0.84[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6666042	0.84[AMR][1000 genomes]
rs7514108	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7515909	0.81[AMR][1000 genomes]
rs9429846	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9429847	0.92[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873148	chr1:210665583-210994339	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv873153	chr1:210900481-210994339	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv999018	chr1:210907239-210999306	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210871200-210932000	Weak transcription	HSMM	muscle
2	chr1:210929200-210933000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:210930600-210931800	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr1:210930800-210931800	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr1:210930800-210931800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr1:210931000-210931800	Enhancers	H9 Cell Line	embryonic stem cell
7	chr1:210931000-210931800	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr1:210931200-210931800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr1:210931200-210932000	Enhancers	Brain Angular Gyrus	brain
10	chr1:210931400-210932000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr1:210931400-210932200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr1:210931400-210932400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr1:210931600-210931800	Enhancers	HSMMtube	muscle
14	chr1:210931600-210932000	Enhancers	Fetal Muscle Trunk	muscle
15	chr1:210931600-210932200	Enhancers	Esophagus	oesophagus

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