Variant report

Variant	rs668052
Chromosome Location	chr7:26868526-26868527
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1391805	0.82[AFR][1000 genomes]
rs213525	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs213528	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs213533	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs213536	0.93[EUR][1000 genomes]
rs477924	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs490366	0.85[AFR][1000 genomes]
rs514043	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs550141	0.86[AFR][1000 genomes]
rs558263	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs591895	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs659131	0.83[AMR][1000 genomes];0.94[EUR][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	nsv1025538	chr7:26482342-27376045	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
2	nsv538805	chr7:26482342-27376045	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
3	nsv887855	chr7:26823963-26872652	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs668052	HOXA2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:26813000-26871200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr7:26825400-26872400	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr7:26839400-26871800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr7:26843600-26870800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr7:26843600-26871400	Weak transcription	Primary hematopoietic stem cells	blood
6	chr7:26850000-26869200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr7:26850400-26871400	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr7:26852600-26870600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr7:26853400-26882600	Weak transcription	Adipose Nuclei	Adipose
10	chr7:26853600-26872000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr7:26853800-26871400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr7:26854200-26876400	Weak transcription	Fetal Lung	lung
13	chr7:26856400-26871800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr7:26856600-26871400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr7:26860600-26875400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr7:26861000-26882600	Weak transcription	HUVEC	blood vessel
17	chr7:26861200-26876600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr7:26862200-26877800	Weak transcription	Primary T cells from cord blood	blood
19	chr7:26862600-26872800	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr7:26863200-26893200	Weak transcription	A549	lung
21	chr7:26863600-26894600	Weak transcription	Fetal Intestine Large	intestine
22	chr7:26863800-26871400	Weak transcription	Primary B cells from peripheral blood	blood
23	chr7:26863800-26871400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr7:26863800-26872400	Weak transcription	Esophagus	oesophagus
25	chr7:26865800-26872000	Weak transcription	HMEC	breast
26	chr7:26866000-26868800	Weak transcription	Primary B cells from cord blood	blood
27	chr7:26866200-26868800	Weak transcription	Primary monocytes fromperipheralblood	blood
28	chr7:26866400-26871600	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr7:26867200-26897000	Weak transcription	Lung	lung

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