Variant report

Variant	rs60985329
Chromosome Location	chr6:24859701-24859702
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:24857230..24860710-chr6:24861269..24864653,3	K562	blood:
2	chr6:24859318..24861345-chr6:24947932..24950896,2	K562	blood:
3	chr6:24857285..24860038-chr6:25061780..25063789,2	K562	blood:
4	chr6:24858123..24860977-chr6:24989589..24991591,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000217083	Chromatin interaction
ENSG00000230372	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs17839854	0.95[AFR][1000 genomes]
rs45617645	0.95[AFR][1000 genomes]
rs6913594	0.85[AFR][1000 genomes]
rs6914059	0.85[AFR][1000 genomes]
rs6936710	0.85[AFR][1000 genomes]
rs73398433	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73398436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73398461	0.95[AFR][1000 genomes]
rs73398472	0.95[AFR][1000 genomes]
rs73398481	0.95[AFR][1000 genomes]
rs73400424	0.85[AFR][1000 genomes]
rs73400425	0.85[AFR][1000 genomes]
rs73400436	0.85[AFR][1000 genomes]
rs73400437	0.85[AFR][1000 genomes]
rs73400441	0.85[AFR][1000 genomes]
rs73400452	0.85[AFR][1000 genomes]
rs7758438	0.85[AFR][1000 genomes]
rs7773553	0.85[AFR][1000 genomes]
rs7776271	0.85[AFR][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	nsv830609	chr6:24712086-24896647	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
2	nsv1022966	chr6:24763776-25154212	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv538160	chr6:24763776-25154212	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24843800-24879400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:24844200-24859800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr6:24844600-24860200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:24844600-24873200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:24846200-24873400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr6:24846800-24866000	Weak transcription	Fetal Intestine Small	intestine
7	chr6:24847000-24876600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr6:24848400-24860000	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr6:24849000-24864600	Weak transcription	Brain Germinal Matrix	brain
10	chr6:24850800-24864600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr6:24854400-24869400	Genic enhancers	Primary B cells from peripheral blood	blood
12	chr6:24855200-24895000	Genic enhancers	Primary T helper cells fromperipheralblood	blood
13	chr6:24855600-24866000	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
14	chr6:24855800-24859800	Enhancers	Brain Inferior Temporal Lobe	brain
15	chr6:24855800-24863800	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
16	chr6:24855800-24874200	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
17	chr6:24856000-24861400	Genic enhancers	Primary monocytes fromperipheralblood	blood
18	chr6:24856000-24863800	Genic enhancers	Fetal Thymus	thymus
19	chr6:24856000-24872200	Genic enhancers	Primary T cells fromperipheralblood	blood
20	chr6:24856200-24876400	Weak transcription	Rectal Smooth Muscle	rectum
21	chr6:24856200-24882400	Weak transcription	NHLF	lung
22	chr6:24856400-24860000	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr6:24856400-24860000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr6:24856400-24860400	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr6:24856400-24877200	Weak transcription	Stomach Smooth Muscle	stomach
26	chr6:24856600-24861400	Genic enhancers	Primary mononuclear cells fromperipheralblood	Blood
27	chr6:24857200-24859800	Transcr. at gene 5' and 3'	Monocytes-CD14+_RO01746	blood
28	chr6:24857200-24864800	Strong transcription	Skeletal Muscle Male	skeletal muscle
29	chr6:24857200-24865600	Strong transcription	H9 Cell Line	embryonic stem cell
30	chr6:24857400-24865800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr6:24857400-24866000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr6:24857400-24866000	Strong transcription	Thymus	Thymus
33	chr6:24857600-24866000	Strong transcription	HSMMtube	muscle
34	chr6:24857600-24869200	Weak transcription	Fetal Brain Male	brain
35	chr6:24857600-24870200	Weak transcription	Fetal Brain Female	brain
36	chr6:24857800-24860200	Transcr. at gene 5' and 3'	Primary T helper cells PMA-I stimulated	--
37	chr6:24858000-24860200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr6:24858000-24860400	Enhancers	HMEC	breast
39	chr6:24858000-24860400	Enhancers	NHEK	skin
40	chr6:24858000-24863600	Strong transcription	Fetal Muscle Trunk	muscle
41	chr6:24858000-24865600	Strong transcription	Dnd41	blood
42	chr6:24858000-24866000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr6:24858200-24859800	Transcr. at gene 5' and 3'	Primary B cells from cord blood	blood
44	chr6:24858200-24860000	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr6:24858200-24860000	Genic enhancers	Spleen	Spleen
46	chr6:24858200-24860200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr6:24858200-24860200	Enhancers	Brain Hippocampus Middle	brain
48	chr6:24858200-24861600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr6:24858200-24865800	Strong transcription	H1 Cell Line	embryonic stem cell
50	chr6:24858400-24859800	Genic enhancers	Fetal Muscle Leg	muscle

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