Variant report

Variant	rs1490220
Chromosome Location	chr6:77149485-77149486
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 91 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs1038750	0.96[EUR][1000 genomes]
rs10455318	0.96[EUR][1000 genomes]
rs11970502	0.94[EUR][1000 genomes]
rs12201715	0.83[ASN][1000 genomes]
rs12216458	0.83[EUR][1000 genomes]
rs13195534	0.83[EUR][1000 genomes]
rs1387842	0.94[EUR][1000 genomes]
rs1387843	0.97[EUR][1000 genomes]
rs1387851	0.98[EUR][1000 genomes]
rs1490208	0.84[ASN][1000 genomes]
rs1490209	0.96[EUR][1000 genomes]
rs1490210	0.96[EUR][1000 genomes]
rs1490211	0.81[ASN][1000 genomes]
rs1490213	0.99[EUR][1000 genomes]
rs1532134	0.99[EUR][1000 genomes]
rs1602255	0.84[ASN][1000 genomes]
rs1844553	0.94[EUR][1000 genomes]
rs2101563	0.92[EUR][1000 genomes]
rs2451594	0.96[CEU][hapmap];0.89[EUR][1000 genomes]
rs2504634	0.92[EUR][1000 genomes]
rs2504986	0.85[EUR][1000 genomes]
rs2504987	0.85[EUR][1000 genomes]
rs3123639	0.92[EUR][1000 genomes]
rs4088862	0.96[EUR][1000 genomes]
rs4305690	0.83[ASN][1000 genomes]
rs4336415	0.83[EUR][1000 genomes]
rs4337905	0.83[EUR][1000 genomes]
rs4478374	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4583941	0.97[EUR][1000 genomes]
rs4598032	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs4598033	0.83[ASN][1000 genomes]
rs4706618	0.97[EUR][1000 genomes]
rs4708267	0.97[EUR][1000 genomes]
rs5009482	0.99[EUR][1000 genomes]
rs6453899	0.97[EUR][1000 genomes]
rs6453900	0.96[EUR][1000 genomes]
rs6453902	0.83[ASN][1000 genomes]
rs6453903	0.83[ASN][1000 genomes]
rs6453904	0.81[ASN][1000 genomes]
rs6903382	0.97[EUR][1000 genomes]
rs6907510	0.98[EUR][1000 genomes]
rs6908025	0.96[EUR][1000 genomes]
rs6916882	0.80[ASN][1000 genomes]
rs6916992	0.84[ASN][1000 genomes]
rs6917291	0.83[ASN][1000 genomes]
rs6918707	0.99[EUR][1000 genomes]
rs6924853	0.96[EUR][1000 genomes]
rs6928036	0.96[EUR][1000 genomes]
rs6928328	0.96[EUR][1000 genomes]
rs6941851	0.84[ASN][1000 genomes]
rs7739183	0.83[ASN][1000 genomes]
rs7745942	0.83[EUR][1000 genomes]
rs7747109	0.84[EUR][1000 genomes]
rs7751667	0.83[EUR][1000 genomes]
rs7754323	0.81[ASN][1000 genomes]
rs7754981	0.97[EUR][1000 genomes]
rs7756845	0.81[ASN][1000 genomes]
rs7757654	0.81[ASN][1000 genomes]
rs7757747	0.80[ASN][1000 genomes]
rs7759390	0.84[ASN][1000 genomes]
rs7773888	0.83[EUR][1000 genomes]
rs867868	0.97[EUR][1000 genomes]
rs923553	0.89[EUR][1000 genomes]
rs9341581	0.84[EUR][1000 genomes]
rs9343441	0.95[EUR][1000 genomes]
rs9343442	0.97[EUR][1000 genomes]
rs9343463	0.83[EUR][1000 genomes]
rs9350655	0.97[EUR][1000 genomes]
rs9350660	0.95[EUR][1000 genomes]
rs9352325	0.97[EUR][1000 genomes]
rs9352336	0.97[EUR][1000 genomes]
rs9359202	0.96[EUR][1000 genomes]
rs9361057	0.97[EUR][1000 genomes]
rs9443242	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9443251	0.83[EUR][1000 genomes]
rs9447697	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9447698	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9447700	0.83[ASN][1000 genomes]
rs9447718	0.85[EUR][1000 genomes]
rs9447726	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932201	chr6:76365548-77219650	Enhancers Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv603775	chr6:77070690-77157446	Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region	1 gene(s)	inside rSNPs	diseases
3	nsv1025439	chr6:77093795-77479689	Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv538320	chr6:77093795-77479689	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv886204	chr6:77103194-77208816	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv886205	chr6:77103194-77266188	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv830699	chr6:77111857-77291223	ZNF genes & repeats Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv886206	chr6:77130167-77208816	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv886207	chr6:77130167-77266188	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv886208	chr6:77130167-77317683	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv886209	chr6:77138302-77208816	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:77145200-77151600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:77148200-77151600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr6:77148800-77150000	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr6:77148800-77152000	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr6:77149000-77149600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr6:77149000-77149800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:77149000-77150200	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr6:77149000-77151800	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr6:77149000-77152000	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr6:77149200-77149600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr6:77149200-77149600	Enhancers	Fetal Heart	heart
12	chr6:77149200-77149600	Active TSS	Skeletal Muscle Female	skeletal muscle
13	chr6:77149200-77150600	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr6:77149200-77151000	Enhancers	H1 Cell Line	embryonic stem cell
15	chr6:77149200-77151000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr6:77149400-77149800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr6:77149400-77149800	Enhancers	H9 Cell Line	embryonic stem cell
18	chr6:77149400-77149800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr6:77149400-77150400	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr6:77149400-77150600	Enhancers	ES-WA7 Cell Line	embryonic stem cell

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