Variant report

Variant	rs62419465
Chromosome Location	chr6:88432715-88432716
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:88410452..88412846-chr6:88432544..88434612,4	MCF-7	breast:
2	chr6:88409500..88413852-chr6:88432597..88436839,10	K562	blood:
3	chr6:88432657..88435151-chr6:88437657..88440381,2	K562	blood:
4	chr6:88410420..88413048-chr6:88432123..88435166,5	K562	blood:
5	chr6:88414869..88417780-chr6:88431598..88434041,2	K562	blood:
6	chr6:88424254..88426709-chr6:88431488..88433115,2	MCF-7	breast:
7	chr6:88410379..88413746-chr6:88430806..88436396,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000135334	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12190021	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12203759	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13211833	0.89[ASN][1000 genomes]
rs13219631	0.89[ASN][1000 genomes]
rs28752032	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34080809	0.89[ASN][1000 genomes]
rs35326820	0.89[ASN][1000 genomes]
rs35440627	0.89[ASN][1000 genomes]
rs35607770	0.89[ASN][1000 genomes]
rs35965137	0.89[ASN][1000 genomes]
rs3763176	0.89[ASN][1000 genomes]
rs55686846	1.00[AMR][1000 genomes]
rs61432898	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62417757	0.89[ASN][1000 genomes]
rs62419466	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758068	chr6:88358988-88441473	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	esv2759454	chr6:88358988-88441473	Strong transcription Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:88420200-88436800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:88424600-88432800	Weak transcription	Fetal Thymus	thymus
3	chr6:88424600-88439200	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr6:88427400-88432800	Weak transcription	Fetal Muscle Leg	muscle
5	chr6:88427400-88432800	Weak transcription	Left Ventricle	heart
6	chr6:88427600-88432800	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr6:88427600-88439400	Weak transcription	Right Atrium	heart
8	chr6:88427800-88432800	Weak transcription	Duodenum Mucosa	Duodenum
9	chr6:88429000-88432800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr6:88429000-88432800	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr6:88429200-88432800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:88429400-88432800	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr6:88429400-88432800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr6:88429400-88432800	Weak transcription	Placenta	Placenta
15	chr6:88429400-88434800	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr6:88429400-88439400	Weak transcription	Esophagus	oesophagus
17	chr6:88429600-88433000	Weak transcription	Stomach Smooth Muscle	stomach
18	chr6:88429600-88434600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr6:88429800-88432800	Weak transcription	Primary B cells from cord blood	blood
20	chr6:88430000-88432800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr6:88430400-88432800	Enhancers	NHDF-Ad	bronchial
22	chr6:88430800-88432800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr6:88431000-88432800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr6:88431200-88433800	Enhancers	Psoas Muscle	Psoas
25	chr6:88431800-88432800	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr6:88431800-88433800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
27	chr6:88432000-88432800	Enhancers	Muscle Satellite Cultured Cells	--
28	chr6:88432000-88433000	Flanking Active TSS	A549	lung
29	chr6:88432000-88433800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
30	chr6:88432000-88433800	Enhancers	NHLF	lung
31	chr6:88432000-88434000	Enhancers	HMEC	breast
32	chr6:88432000-88435800	Enhancers	Primary hematopoietic stem cells	blood
33	chr6:88432000-88435800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr6:88432200-88433400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr6:88432200-88433600	Enhancers	iPS-20b Cell Line	embryonic stem cell
36	chr6:88432200-88433600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr6:88432200-88433800	Enhancers	ES-I3 Cell Line	embryonic stem cell
38	chr6:88432200-88433800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr6:88432200-88433800	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr6:88432200-88433800	Enhancers	Primary neutrophils fromperipheralblood	blood
41	chr6:88432200-88433800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr6:88432200-88433800	Enhancers	Liver	Liver
43	chr6:88432200-88433800	Enhancers	HSMM	muscle
44	chr6:88432200-88434000	Enhancers	NHEK	skin
45	chr6:88432200-88434800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr6:88432200-88435600	Enhancers	Primary hematopoietic stem cells short term culture	blood
47	chr6:88432200-88435600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
48	chr6:88432400-88433000	Enhancers	Monocytes-CD14+_RO01746	blood
49	chr6:88432400-88433000	Flanking Active TSS	Osteobl	bone
50	chr6:88432400-88433400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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