Variant report

Variant	rs73398481
Chromosome Location	chr6:24870074-24870075
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs17839854	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs45617645	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs60985329	0.95[AFR][1000 genomes]
rs6913594	0.90[AFR][1000 genomes]
rs6914059	0.90[AFR][1000 genomes]
rs6933228	0.81[EUR][1000 genomes]
rs6936710	0.90[AFR][1000 genomes]
rs73382319	0.90[EUR][1000 genomes]
rs73382339	0.90[EUR][1000 genomes]
rs73382350	0.90[EUR][1000 genomes]
rs73382372	0.90[EUR][1000 genomes]
rs73398433	0.95[AFR][1000 genomes]
rs73398436	0.95[AFR][1000 genomes]
rs73398461	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs73398472	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73400424	0.90[AFR][1000 genomes]
rs73400425	0.90[AFR][1000 genomes]
rs73400436	0.90[AFR][1000 genomes]
rs73400437	0.90[AFR][1000 genomes]
rs73400441	0.90[AFR][1000 genomes]
rs73400452	0.90[AFR][1000 genomes]
rs7758438	0.90[AFR][1000 genomes]
rs7773553	0.90[AFR][1000 genomes]
rs7776271	0.90[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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
4	nsv1019504	chr6:24869174-24994758	Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 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	chr6:24844600-24873200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr6:24846200-24873400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:24847000-24876600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr6:24855200-24895000	Genic enhancers	Primary T helper cells fromperipheralblood	blood
6	chr6:24855800-24874200	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
7	chr6:24856000-24872200	Genic enhancers	Primary T cells fromperipheralblood	blood
8	chr6:24856200-24876400	Weak transcription	Rectal Smooth Muscle	rectum
9	chr6:24856200-24882400	Weak transcription	NHLF	lung
10	chr6:24856400-24877200	Weak transcription	Stomach Smooth Muscle	stomach
11	chr6:24857600-24870200	Weak transcription	Fetal Brain Female	brain
12	chr6:24858600-24876000	Weak transcription	Right Ventricle	heart
13	chr6:24858800-24876600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr6:24859200-24873200	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr6:24859200-24873200	Strong transcription	Placenta	Placenta
16	chr6:24859200-24877000	Weak transcription	Gastric	stomach
17	chr6:24859200-24877000	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr6:24859200-24877200	Weak transcription	Lung	lung
19	chr6:24859400-24873600	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
20	chr6:24859400-24874800	Weak transcription	Adipose Nuclei	Adipose
21	chr6:24859400-24886800	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr6:24860400-24872200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr6:24860400-24876600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr6:24860800-24872400	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr6:24861200-24877000	Weak transcription	Psoas Muscle	Psoas
26	chr6:24861400-24876800	Strong transcription	Primary monocytes fromperipheralblood	blood
27	chr6:24861600-24875400	Weak transcription	Duodenum Mucosa	Duodenum
28	chr6:24861600-24877000	Strong transcription	Monocytes-CD14+_RO01746	blood
29	chr6:24862800-24876000	Strong transcription	Primary neutrophils fromperipheralblood	blood
30	chr6:24862800-24877000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr6:24862800-24885600	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
32	chr6:24862800-24887400	Genic enhancers	Primary T helper cells PMA-I stimulated	--
33	chr6:24863000-24876600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr6:24863800-24875800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr6:24863800-24876400	Strong transcription	Fetal Thymus	thymus
36	chr6:24864000-24873000	Weak transcription	HSMM	muscle
37	chr6:24864000-24877200	Weak transcription	Fetal Stomach	stomach
38	chr6:24864400-24877000	Strong transcription	Primary hematopoietic stem cells	blood
39	chr6:24865400-24872000	Weak transcription	Fetal Heart	heart
40	chr6:24865400-24872400	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chr6:24865600-24872200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr6:24865600-24873400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr6:24865600-24876000	Weak transcription	Left Ventricle	heart
44	chr6:24865600-24877000	Strong transcription	Primary B cells from cord blood	blood
45	chr6:24865600-24879600	Weak transcription	Brain Germinal Matrix	brain
46	chr6:24865800-24872000	Weak transcription	Placenta Amnion	Placenta Amnion
47	chr6:24865800-24877000	Weak transcription	Liver	Liver
48	chr6:24867200-24871000	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
49	chr6:24867200-24871600	Weak transcription	Ovary	ovary
50	chr6:24867600-24876200	Strong transcription	GM12878-XiMat	blood

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