Variant report

Variant	rs62424001
Chromosome Location	chr6:119021005-119021006
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:119012354..119023494-chr6:119027532..119033557,15	K562	blood:
2	chr6:119018074..119021442-chr6:119030163..119033540,4	K562	blood:
3	chr6:119020899..119024198-chr6:119027287..119029585,3	MCF-7	breast:
4	chr6:119019680..119022002-chr6:119024066..119026912,2	K562	blood:

Variant related genes	Relation type
ENSG00000111860	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10485390	0.82[AMR][1000 genomes]
rs10499088	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17349301	0.82[AMR][1000 genomes]
rs17694991	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1891713	0.82[AMR][1000 genomes]
rs1891714	0.82[AMR][1000 genomes]
rs1891715	0.82[AMR][1000 genomes]
rs62422254	0.82[AMR][1000 genomes]
rs62422258	0.83[AMR][1000 genomes]
rs62422259	0.82[AMR][1000 genomes]
rs62423960	0.82[AMR][1000 genomes]
rs62423961	0.82[AMR][1000 genomes]
rs62423962	0.82[AMR][1000 genomes]
rs62423963	0.82[AMR][1000 genomes]
rs62423964	0.82[AMR][1000 genomes]
rs62423965	0.82[AMR][1000 genomes]
rs62423966	0.82[AMR][1000 genomes]
rs62423967	0.82[AMR][1000 genomes]
rs62423968	0.82[AMR][1000 genomes]
rs62423969	0.82[AMR][1000 genomes]
rs62423970	0.82[AMR][1000 genomes]
rs62423993	0.82[AMR][1000 genomes]
rs62423994	0.82[AMR][1000 genomes]
rs62423995	0.82[AMR][1000 genomes]
rs62423996	0.80[AMR][1000 genomes]
rs62423997	0.82[AMR][1000 genomes]
rs62423999	0.82[AMR][1000 genomes]
rs62424000	0.82[AMR][1000 genomes]
rs62424002	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72962946	0.84[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532051	chr6:118551027-119044197	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1020463	chr6:118593028-119146363	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv1025403	chr6:118635123-119122551	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv1025456	chr6:118669672-119058789	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv1027444	chr6:118687556-119121660	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
6	nsv538428	chr6:118687556-119121660	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv949321	chr6:118692304-119137658	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
8	nsv1025097	chr6:118699752-119058789	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
9	nsv532052	chr6:118711850-119057295	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
10	nsv604556	chr6:118722589-119065365	Active TSS Strong transcription Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
11	nsv949416	chr6:118772508-119033063	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
12	nsv948980	chr6:118772508-119137658	Genic enhancers Flanking Active TSS Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
13	nsv604559	chr6:118786486-119113317	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
14	nsv1022865	chr6:118786586-119058789	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
15	nsv1020405	chr6:118786586-119241006	ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
16	nsv830788	chr6:119014021-119143652	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:118990600-119025400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr6:118999600-119021600	Weak transcription	Thymus	Thymus
3	chr6:119001000-119026000	Weak transcription	NH-A	brain
4	chr6:119002200-119026600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr6:119004000-119026600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:119007400-119021400	Weak transcription	Dnd41	blood
7	chr6:119008400-119022000	Weak transcription	GM12878-XiMat	blood
8	chr6:119016400-119022000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr6:119016600-119021800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr6:119016600-119021800	Strong transcription	Fetal Thymus	thymus
11	chr6:119017200-119026400	Weak transcription	HMEC	breast
12	chr6:119017800-119026000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr6:119018400-119021600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr6:119018600-119021400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr6:119019400-119021400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr6:119019400-119026800	Weak transcription	Psoas Muscle	Psoas
17	chr6:119019600-119021200	Weak transcription	Primary B cells from peripheral blood	blood
18	chr6:119019600-119024800	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr6:119019800-119021600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr6:119019800-119026000	Weak transcription	K562	blood
21	chr6:119020000-119021200	Weak transcription	Primary T cells from cord blood	blood
22	chr6:119020000-119021200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr6:119020000-119021200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
24	chr6:119020000-119021400	Weak transcription	Primary B cells from cord blood	blood
25	chr6:119020200-119021200	Weak transcription	Primary T helper cells fromperipheralblood	blood
26	chr6:119020200-119021200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr6:119020200-119022400	Genic enhancers	Primary T cells fromperipheralblood	blood
28	chr6:119020400-119021200	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr6:119020400-119025800	Weak transcription	Primary hematopoietic stem cells	blood
30	chr6:119020600-119021200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

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