Variant report

Variant	rs6842093
Chromosome Location	chr4:90647865-90647866
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:90638928..90641503-chr4:90646361..90648020,2	K562	blood:

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10516846	0.83[YRI][hapmap]
rs10516847	1.00[YRI][hapmap]
rs12640573	0.82[YRI][hapmap]
rs17016074	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17016083	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17016100	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17016107	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17016126	1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[YRI][hapmap]
rs2882785	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34094566	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34351491	0.82[ASW][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34747217	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35683448	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35771728	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35921673	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3729594	1.00[YRI][hapmap]
rs3775435	0.81[MKK][hapmap];1.00[YRI][hapmap]
rs3775438	0.91[YRI][hapmap]
rs3775442	0.80[MKK][hapmap];1.00[YRI][hapmap]
rs3775444	1.00[YRI][hapmap]
rs3775450	1.00[YRI][hapmap]
rs3822088	1.00[YRI][hapmap]
rs3822091	1.00[YRI][hapmap]
rs3857054	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3857056	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3857060	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3898322	1.00[YRI][hapmap]
rs4635786	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57267227	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57928386	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61378184	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6532185	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6532186	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6532187	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6532188	1.00[EUR][1000 genomes]
rs6814056	1.00[EUR][1000 genomes]
rs961386	0.80[MKK][hapmap];1.00[YRI][hapmap]

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	esv2830400	chr4:90085456-90922432	Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv1012406	chr4:90167781-91166787	Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv949454	chr4:90272120-91156917	Flanking Bivalent TSS/Enh Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6842093	FAM190A	cis	lymphoblastoid	seeQTL

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:90640800-90659000	Weak transcription	HMEC	breast
2	chr4:90640800-90659200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr4:90642400-90651600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr4:90642600-90648400	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr4:90642800-90668800	Weak transcription	Brain Substantia Nigra	brain
6	chr4:90643000-90648000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr4:90644800-90651400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr4:90646000-90659200	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr4:90646200-90649000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr4:90646400-90648200	Weak transcription	NHEK	skin
11	chr4:90646400-90661000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr4:90646800-90648000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr4:90646800-90674000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr4:90647000-90648200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr4:90647000-90648600	Strong transcription	Primary hematopoietic stem cells	blood
16	chr4:90647000-90650400	Strong transcription	Monocytes-CD14+_RO01746	blood
17	chr4:90647000-90650600	Strong transcription	Dnd41	blood
18	chr4:90647200-90652600	Strong transcription	HUVEC	blood vessel
19	chr4:90647400-90648000	Strong transcription	Ovary	ovary
20	chr4:90647400-90648800	Strong transcription	Fetal Lung	lung
21	chr4:90647600-90648200	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr4:90647600-90649400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
23	chr4:90647800-90650800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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