Variant report

Variant	rs9857606
Chromosome Location	chr3:61127304-61127305
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1001788	1.00[CHB][hapmap];0.87[CHD][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs10049007	0.88[ASN][1000 genomes]
rs10049287	0.88[ASN][1000 genomes]
rs10049452	0.88[ASN][1000 genomes]
rs10049454	0.88[ASN][1000 genomes]
rs11707984	0.89[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs11712122	0.88[ASN][1000 genomes]
rs12053817	0.87[CHD][hapmap];0.84[GIH][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs12635622	0.88[ASN][1000 genomes]
rs13320646	0.89[CHB][hapmap];0.87[CHD][hapmap];0.84[GIH][hapmap];0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs13323296	0.84[ASN][1000 genomes]
rs1371095	0.89[CHB][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs1473644	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1550343	0.89[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs1554601	1.00[CHB][hapmap];0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs1866433	0.82[JPT][hapmap]
rs1916802	0.85[JPT][hapmap];0.82[ASN][1000 genomes]
rs1966136	0.89[GIH][hapmap];0.85[JPT][hapmap]
rs1969420	0.89[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs2118811	0.88[ASN][1000 genomes]
rs2886377	0.88[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4309721	1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4535219	0.81[JPT][hapmap]
rs4688295	0.88[ASN][1000 genomes]
rs4688310	0.87[ASN][1000 genomes]
rs56076618	0.88[ASN][1000 genomes]
rs61275795	0.85[ASN][1000 genomes]
rs6445196	0.87[ASN][1000 genomes]
rs6787511	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6807748	0.89[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs7631101	0.88[ASN][1000 genomes]
rs7631246	0.89[CHB][hapmap];0.82[CHD][hapmap];0.86[GIH][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs7636682	0.88[ASN][1000 genomes]
rs7641177	0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs9814044	0.88[ASN][1000 genomes]
rs9816087	0.97[ASN][1000 genomes]
rs9839082	0.88[ASN][1000 genomes]
rs9844741	0.83[JPT][hapmap]
rs9850125	0.89[CHB][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs9851485	0.89[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs9861713	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9871451	0.89[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs9871598	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:33 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2759152	chr3:60781943-61220809	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv1012510	chr3:60952040-61131709	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv536578	chr3:60952040-61131709	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv948633	chr3:60993915-61171279	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv834710	chr3:60995631-61148157	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv2757873	chr3:61019003-61185558	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv876866	chr3:61054494-61310328	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv876867	chr3:61054494-61474575	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv432423	chr3:61100255-61606060	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
10	nsv1000378	chr3:61103229-61238089	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv590411	chr3:61122318-61128132	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv590412	chr3:61124257-61128067	Enhancers Flanking Active TSS Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv590413	chr3:61124257-61128132	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
14	esv3494891	chr3:61126462-61129260	Active TSS Enhancers Flanking Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases
15	esv3461923	chr3:61126849-61128466	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	diseases
16	esv3461924	chr3:61127051-61128301	Enhancers Flanking Active TSS Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases
17	nsv10275	chr3:61127063-61128704	Enhancers Active TSS Flanking Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases
18	esv3398839	chr3:61127087-61128274	Active TSS Flanking Active TSS Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
19	esv3494892	chr3:61127103-61128236	Active TSS Enhancers Flanking Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases
20	esv3461922	chr3:61127104-61128265	Enhancers Flanking Active TSS Weak transcription Active TSS	n/a	n/a	inside rSNPs	diseases
21	esv3461925	chr3:61127106-61128225	Enhancers Flanking Active TSS Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases
22	esv3461921	chr3:61127107-61128267	Enhancers Active TSS Flanking Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases
23	esv3461926	chr3:61127190-61128194	Enhancers Flanking Active TSS Weak transcription Active TSS	n/a	n/a	inside rSNPs	diseases
24	esv3494893	chr3:61127190-61128194	Flanking Active TSS Active TSS Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
25	esv19988	chr3:61127191-61128174	Flanking Active TSS Enhancers Weak transcription Active TSS	n/a	n/a	inside rSNPs	diseases
26	nsv590414	chr3:61127205-61127768	Flanking Active TSS Enhancers Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases
27	nsv590415	chr3:61127205-61127917	Enhancers Flanking Active TSS Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases
28	nsv590416	chr3:61127205-61127981	Enhancers Flanking Active TSS Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases
29	nsv590417	chr3:61127205-61128067	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	diseases
30	nsv590418	chr3:61127205-61128132	Enhancers Active TSS Flanking Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases
31	nsv590419	chr3:61127205-61130827	Flanking Active TSS Enhancers Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases
32	nsv590420	chr3:61127304-61127917	Enhancers Flanking Active TSS Weak transcription Active TSS	n/a	n/a	inside rSNPs	diseases
33	nsv590421	chr3:61127304-61128132	Flanking Active TSS Enhancers Weak transcription Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:61107800-61128000	Weak transcription	Primary T cells from cord blood	blood
2	chr3:61126200-61128200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:61126200-61128200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
4	chr3:61126200-61129200	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr3:61126600-61127600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
6	chr3:61126600-61127600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
7	chr3:61126600-61127600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
8	chr3:61126800-61127600	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr3:61126800-61127800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr3:61126800-61127800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr3:61126800-61128200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
12	chr3:61126800-61128200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr3:61127000-61127800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr3:61127200-61127400	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
15	chr3:61127200-61127600	Flanking Active TSS	H1 Cell Line	embryonic stem cell
16	chr3:61127200-61127600	Active TSS	H9 Cell Line	embryonic stem cell
17	chr3:61127200-61127600	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
18	chr3:61127200-61127600	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
19	chr3:61127200-61127800	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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