Variant report

Variant	rs4380739
Chromosome Location	chr6:38845314-38845315
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:38838915..38841250-chr6:38844804..38847506,2	MCF-7	breast:
2	chr6:38843131..38846094-chr6:38848910..38851471,2	K562	blood:

Extended variants
information (count: 107 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs1018437	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1157884	0.93[JPT][hapmap]
rs1564377	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1614699	0.87[JPT][hapmap]
rs1678638	0.90[CHB][hapmap];0.93[JPT][hapmap]
rs1678640	0.87[ASN][1000 genomes]
rs1678657	0.87[JPT][hapmap]
rs1678669	0.93[JPT][hapmap]
rs1678675	0.85[JPT][hapmap]
rs1678690	0.92[CEU][hapmap]
rs1678694	0.92[CEU][hapmap]
rs1678698	0.96[CEU][hapmap];0.93[TSI][hapmap]
rs1678699	0.96[CEU][hapmap];0.93[TSI][hapmap]
rs1678703	0.96[CEU][hapmap]
rs1678708	0.96[CEU][hapmap]
rs1678709	0.96[CEU][hapmap]
rs1678717	0.96[CEU][hapmap];0.90[CHB][hapmap];0.86[CHD][hapmap];0.93[JPT][hapmap];0.93[TSI][hapmap]
rs1678718	0.93[JPT][hapmap]
rs1678725	0.81[CHD][hapmap];0.93[JPT][hapmap]
rs1678742	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];0.97[TSI][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1738184	0.90[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs1738192	0.93[JPT][hapmap]
rs1738199	0.81[ASN][1000 genomes]
rs1738203	0.96[CEU][hapmap];0.89[CHB][hapmap];0.93[JPT][hapmap]
rs1738211	0.96[CEU][hapmap];0.93[TSI][hapmap]
rs1738215	0.96[CEU][hapmap]
rs1738216	0.96[CEU][hapmap]
rs1738219	0.95[CEU][hapmap]
rs1738220	0.92[CEU][hapmap];0.85[TSI][hapmap]
rs1738231	0.91[CEU][hapmap];0.81[JPT][hapmap]
rs1738239	0.93[JPT][hapmap]
rs1738240	0.86[JPT][hapmap]
rs1738241	0.92[CEU][hapmap];0.93[JPT][hapmap]
rs1738243	0.93[JPT][hapmap]
rs1738247	0.93[JPT][hapmap]
rs1738263	0.87[JPT][hapmap]
rs2061907	1.00[CEU][hapmap];0.87[LWK][hapmap];0.82[MKK][hapmap];0.97[TSI][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs2179711	1.00[CEU][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2179712	1.00[CEU][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2179713	1.00[CEU][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2395709	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs34625234	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35696175	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4286777	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs4302660	1.00[CEU][hapmap];1.00[LWK][hapmap];0.95[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4386804	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs4391252	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.93[YRI][hapmap]
rs4443498	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4501424	1.00[CEU][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4571559	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs4590258	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.92[YRI][hapmap]
rs4711558	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];1.00[LWK][hapmap];0.97[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711559	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711560	0.91[CHD][hapmap];0.91[GIH][hapmap]
rs4714193	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.93[YRI][hapmap]
rs62396413	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6458073	1.00[CEU][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6458074	1.00[CEU][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6458075	1.00[CEU][hapmap];0.98[LWK][hapmap];0.89[MKK][hapmap];0.97[TSI][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6458076	1.00[CEU][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6458077	0.84[EUR][1000 genomes]
rs6458078	1.00[CEU][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6458079	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6458080	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];1.00[LWK][hapmap];0.97[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6458081	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.96[YRI][hapmap]
rs6928952	1.00[CEU][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6931736	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs6934064	1.00[CEU][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7746153	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7748684	1.00[CEU][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7757460	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7772148	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs862422	0.90[CHB][hapmap];0.90[CHD][hapmap];0.93[JPT][hapmap]
rs862425	0.90[CHB][hapmap];0.93[JPT][hapmap]
rs862427	0.86[CHD][hapmap];0.93[JPT][hapmap];0.93[ASN][1000 genomes]
rs862438	1.00[CHB][hapmap]
rs874808	0.92[CEU][hapmap];0.83[TSI][hapmap]
rs9296265	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];0.97[TSI][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9296268	1.00[CHB][hapmap]
rs9349100	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9357290	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];0.93[JPT][hapmap];0.87[LWK][hapmap];0.85[MKK][hapmap];0.93[YRI][hapmap]
rs9366982	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9369085	1.00[CEU][hapmap];0.97[TSI][hapmap];0.83[EUR][1000 genomes]
rs9369087	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9369088	1.00[CEU][hapmap];0.96[YRI][hapmap]
rs9369089	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs9380787	0.84[ASN][1000 genomes]
rs9380788	0.81[EUR][1000 genomes]
rs9380789	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];0.97[TSI][hapmap];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9380791	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[GIH][hapmap];0.81[JPT][hapmap];0.87[LWK][hapmap];0.82[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap]
rs9380792	1.00[CEU][hapmap];0.96[YRI][hapmap]
rs9380795	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9380796	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs9380798	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs9380799	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs9394544	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9394545	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs9394547	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs9394549	0.87[CEU][hapmap];0.93[YRI][hapmap]
rs9394550	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];0.84[MKK][hapmap];0.90[TSI][hapmap]
rs982705	0.81[CHD][hapmap];0.93[JPT][hapmap]
rs984525	0.96[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv830643	chr6:38726675-38905589	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1028088	chr6:38821047-39163549	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv538205	chr6:38821047-39163549	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv885821	chr6:38843970-39039503	Bivalent Enhancer Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38840200-38845400	Enhancers	Fetal Thymus	thymus
2	chr6:38842200-38845400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr6:38842200-38845800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
4	chr6:38842800-38845400	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr6:38843400-38845400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
6	chr6:38843400-38845600	Enhancers	Primary T helper cells fromperipheralblood	blood
7	chr6:38843600-38845400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
8	chr6:38843600-38845400	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr6:38843600-38845400	Enhancers	Dnd41	blood
10	chr6:38843800-38845400	Enhancers	Primary T cells fromperipheralblood	blood
11	chr6:38843800-38845400	Enhancers	Primary hematopoietic stem cells	blood
12	chr6:38843800-38845800	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr6:38844600-38845400	Enhancers	Primary T helper cells PMA-I stimulated	--
14	chr6:38844800-38845400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr6:38845000-38845800	Enhancers	Thymus	Thymus

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