Variant report

Variant	rs1408254
Chromosome Location	chr6:14904327-14904328
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10949262	0.86[CEU][hapmap];0.94[JPT][hapmap];0.86[EUR][1000 genomes]
rs10949263	0.93[EUR][1000 genomes]
rs12208192	0.85[EUR][1000 genomes]
rs12208540	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1811899	0.82[ASN][1000 genomes]
rs2876374	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs364915	0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs365478	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs376065	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs392144	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs398646	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs399269	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs417572	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs428210	0.95[ASN][1000 genomes]
rs429112	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs432263	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs434548	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs438149	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs439819	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs446745	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs447430	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs447503	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs449640	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs451541	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs453214	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs453764	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4712243	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4715931	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4715932	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56328912	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56397208	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59644964	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6919301	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6922300	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6925263	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6930513	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7745963	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7770504	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs837175	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs837181	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs863909	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs94860	0.90[EUR][1000 genomes];0.97[ASN][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	nsv1031668	chr6:14774036-15044308	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv538138	chr6:14774036-15044308	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1017572	chr6:14830510-14906933	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Strong transcription	Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:14894400-14912400	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr6:14894400-14915800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr6:14902400-14904600	Enhancers	Primary B cells from peripheral blood	blood
4	chr6:14902400-14906800	Enhancers	Primary neutrophils fromperipheralblood	blood
5	chr6:14902600-14921400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr6:14902800-14904400	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr6:14902800-14904600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr6:14902800-14904800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr6:14902800-14904800	Enhancers	Fetal Intestine Small	intestine
10	chr6:14903200-14904400	Enhancers	Primary B cells from cord blood	blood
11	chr6:14903200-14904600	Enhancers	Primary hematopoietic stem cells	blood
12	chr6:14903400-14904400	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr6:14903400-14904400	Enhancers	Fetal Thymus	thymus
14	chr6:14903400-14904600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:14903400-14904600	Enhancers	Fetal Intestine Large	intestine
16	chr6:14903400-14904600	Enhancers	NHEK	skin
17	chr6:14903400-14904800	Enhancers	Duodenum Mucosa	Duodenum
18	chr6:14903600-14904400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr6:14903600-14904400	Enhancers	Rectal Mucosa Donor 31	rectum
20	chr6:14903600-14904400	Enhancers	Monocytes-CD14+_RO01746	blood
21	chr6:14903600-14904600	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr6:14903600-14904600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr6:14903600-14904600	Enhancers	Esophagus	oesophagus
24	chr6:14903800-14904400	Enhancers	HMEC	breast
25	chr6:14903800-14904800	Enhancers	Rectal Mucosa Donor 29	rectum

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