Variant report

Variant	rs721363
Chromosome Location	chr3:112177130-112177131
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1488257	1.00[EUR][1000 genomes]
rs1488258	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1879515	0.84[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs1961790	0.87[EUR][1000 genomes]
rs2633540	0.80[ASW][hapmap];1.00[CEU][hapmap];0.80[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];0.81[JPT][hapmap];0.81[LWK][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.99[EUR][1000 genomes]
rs2633552	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2633553	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2633559	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2633564	0.81[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs2633565	0.81[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs2633568	1.00[EUR][1000 genomes]
rs2633569	0.85[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs2633586	0.85[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs2633587	0.85[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs2633590	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2633610	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2633611	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2683910	0.99[EUR][1000 genomes]
rs2683911	0.99[EUR][1000 genomes]
rs2683912	1.00[EUR][1000 genomes]
rs2683914	1.00[EUR][1000 genomes]
rs2683915	0.80[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs2683916	0.85[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs2705511	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2705513	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2705528	0.97[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs2705529	0.92[EUR][1000 genomes]
rs2705545	0.85[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs2952322	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2971207	0.91[ASN][1000 genomes]
rs3109032	1.00[EUR][1000 genomes]
rs3112270	0.96[EUR][1000 genomes]
rs3112271	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35349813	0.95[EUR][1000 genomes]
rs721361	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs721362	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs939579	0.83[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs939580	0.99[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv591294	chr3:112091220-112208750	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1010208	chr3:112098542-112227212	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1003936	chr3:112125931-112274613	Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv998309	chr3:112130290-112278804	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv591300	chr3:112144026-112270857	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
6	nsv1006065	chr3:112147080-112276983	Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv1005323	chr3:112171990-112274613	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs721363	CD200	cis	lymphoblastoid	seeQTL

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112168400-112177800	Weak transcription	Primary T cells from cord blood	blood
2	chr3:112173400-112182200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr3:112174400-112178200	ZNF genes & repeats	GM12878-XiMat	blood
4	chr3:112175200-112178000	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr3:112175200-112178800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr3:112176400-112180200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
7	chr3:112176400-112180800	Enhancers	Primary T helper cells PMA-I stimulated	--
8	chr3:112176600-112178000	Enhancers	Primary B cells from peripheral blood	blood
9	chr3:112177000-112177200	Genic enhancers	Primary B cells from cord blood	blood
10	chr3:112177000-112181000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

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