Variant report

Variant	rs60424096
Chromosome Location	chr6:149448388-149448389
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:149445544..149448447-chr6:149451450..149453533,2	K562	blood:
2	chr6:149440205..149443227-chr6:149446390..149449238,3	K562	blood:
3	chr6:149433670..149435558-chr6:149447633..149449437,2	MCF-7	breast:
4	chr6:149447328..149451282-chr6:149451738..149453433,3	K562	blood:

Variant related genes	Relation type
ENSG00000219487	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs4308587	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4357160	0.96[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs4535574	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4895778	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs55635503	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55843534	0.94[EUR][1000 genomes]
rs56052955	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56071715	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56098879	0.92[EUR][1000 genomes]
rs56227122	0.92[EUR][1000 genomes]
rs56367965	0.92[EUR][1000 genomes]
rs57116615	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58260766	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58500730	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60008694	0.85[EUR][1000 genomes]
rs60107332	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61338555	0.92[EUR][1000 genomes]
rs61555942	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62425887	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62425895	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62425899	0.96[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs62425913	0.94[EUR][1000 genomes]
rs62425916	0.94[EUR][1000 genomes]
rs62425928	0.92[EUR][1000 genomes]
rs62428289	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[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	nsv1032319	chr6:149271433-149550525	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv538470	chr6:149271433-149550525	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv1024776	chr6:149398652-149654593	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149442400-149448400	Weak transcription	K562	blood
2	chr6:149444800-149448400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr6:149445400-149448800	Weak transcription	Primary T cells from cord blood	blood
4	chr6:149445400-149449400	Weak transcription	GM12878-XiMat	blood
5	chr6:149446800-149449400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr6:149447200-149448800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr6:149447600-149449000	Enhancers	Dnd41	blood
8	chr6:149447600-149449400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr6:149447600-149449600	Enhancers	Primary T helper cells PMA-I stimulated	--
10	chr6:149447600-149449600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
11	chr6:149447600-149454400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr6:149447800-149448400	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr6:149447800-149449600	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr6:149447800-149454200	Enhancers	Primary T helper cells fromperipheralblood	blood
15	chr6:149448000-149449000	Enhancers	Muscle Satellite Cultured Cells	--
16	chr6:149448000-149449600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr6:149448000-149452600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:149448200-149448400	Enhancers	HMEC	breast
19	chr6:149448200-149448600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr6:149448200-149448600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr6:149448200-149448600	Enhancers	A549	lung
22	chr6:149448200-149448800	Enhancers	Osteobl	bone
23	chr6:149448200-149449400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
24	chr6:149448200-149452200	Enhancers	Primary T helper naive cells from peripheral blood	blood

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