Variant report

Variant	rs7743681
Chromosome Location	chr6:4933034-4933035
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:4932686..4935166-chr6:4938029..4940915,3	MCF-7	breast:
2	chr6:4927539..4929296-chr6:4930771..4933089,2	K562	blood:
3	chr6:4927539..4929623-chr6:4930066..4933089,3	K562	blood:
4	chr6:4932165..4934498-chr6:4934564..4936978,2	MCF-7	breast:
5	chr6:4932719..4935365-chr6:5002705..5005328,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000124787	Chromatin interaction
ENSG00000153046	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1112267	0.87[JPT][hapmap]
rs13208366	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1341093	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1341094	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1539002	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.87[TSI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1539003	0.94[CEU][hapmap];1.00[CHB][hapmap];0.84[TSI][hapmap];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2027418	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2039906	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2039907	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6911199	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6911937	0.95[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6922170	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9378921	0.94[JPT][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9392642	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023527	chr6:4729592-5387176	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	esv2422499	chr6:4745428-5073222	Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv830577	chr6:4834567-5050544	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv462622	chr6:4904380-5172009	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
5	nsv600871	chr6:4904380-5172009	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription 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 miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4908000-4935600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
2	chr6:4908200-4934800	Weak transcription	Primary B cells from cord blood	blood
3	chr6:4911000-4935200	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr6:4913200-4936000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr6:4913200-4941000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr6:4913600-4938000	Weak transcription	Primary B cells from peripheral blood	blood
7	chr6:4915800-4942400	Weak transcription	Aorta	Aorta
8	chr6:4916200-4933200	Weak transcription	Fetal Stomach	stomach
9	chr6:4916600-4935400	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr6:4917200-4935000	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr6:4918000-4936000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr6:4923000-4937800	Weak transcription	Primary T cells from cord blood	blood
13	chr6:4925400-4934800	Weak transcription	GM12878-XiMat	blood
14	chr6:4925600-4941600	Weak transcription	Primary hematopoietic stem cells	blood
15	chr6:4927600-4940200	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr6:4928200-4933600	Enhancers	HSMMtube	muscle
17	chr6:4928800-4933200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr6:4928800-4935600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr6:4929400-4941600	Weak transcription	Osteobl	bone
20	chr6:4930000-4933400	Enhancers	Colon Smooth Muscle	Colon
21	chr6:4930200-4934000	Enhancers	Fetal Thymus	thymus
22	chr6:4930200-4934600	Enhancers	Fetal Muscle Leg	muscle
23	chr6:4930200-4939800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
24	chr6:4930400-4933400	Enhancers	H1 Cell Line	embryonic stem cell
25	chr6:4930400-4933600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr6:4930400-4933600	Enhancers	Adipose Nuclei	Adipose
27	chr6:4930400-4933600	Enhancers	Skeletal Muscle Female	skeletal muscle
28	chr6:4930400-4933800	Enhancers	Right Ventricle	heart
29	chr6:4930400-4934000	Enhancers	Left Ventricle	heart
30	chr6:4930600-4933200	Weak transcription	HUVEC	blood vessel
31	chr6:4930600-4933600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
32	chr6:4930600-4933600	Enhancers	Placenta	Placenta
33	chr6:4930600-4933800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr6:4930600-4933800	Enhancers	Gastric	stomach
35	chr6:4930600-4934000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr6:4930800-4936000	Weak transcription	Brain Hippocampus Middle	brain
37	chr6:4930800-4940200	Weak transcription	NH-A	brain
38	chr6:4930800-4940600	Weak transcription	Primary T helper cells fromperipheralblood	blood
39	chr6:4931200-4934200	Enhancers	Skeletal Muscle Male	skeletal muscle
40	chr6:4931200-4935800	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr6:4931600-4933200	Enhancers	HMEC	breast
42	chr6:4931600-4933400	Enhancers	Esophagus	oesophagus
43	chr6:4931600-4933600	Enhancers	Primary hematopoietic stem cells short term culture	blood
44	chr6:4931600-4933600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr6:4931600-4935000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr6:4931800-4933400	Enhancers	Pancreas	Pancrea
47	chr6:4931800-4933400	Enhancers	Spleen	Spleen
48	chr6:4931800-4933600	Enhancers	Lung	lung
49	chr6:4931800-4933600	Enhancers	Rectal Mucosa Donor 29	rectum
50	chr6:4931800-4933800	Enhancers	Fetal Muscle Trunk	muscle

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