Variant report

Variant	rs9846590
Chromosome Location	chr3:100493422-100493423
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:100480581..100482605-chr3:100491620..100493476,2	K562	blood:

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs12696195	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13069634	0.92[CEU][hapmap];0.87[EUR][1000 genomes]
rs13089098	1.00[CEU][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13433770	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1979895	0.92[CEU][hapmap]
rs1992107	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6765500	0.86[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs73861213	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7615467	1.00[CEU][hapmap];0.86[GIH][hapmap];0.83[TSI][hapmap];0.89[EUR][1000 genomes]
rs7642643	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9814084	1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9823432	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9833369	0.80[AMR][1000 genomes]
rs9836360	1.00[CEU][hapmap];0.86[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9873555	1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9877253	0.86[GIH][hapmap];0.83[TSI][hapmap]
rs9877951	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9846590	FAM55C	cis	parietal	SCAN

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100450000-100501000	Weak transcription	Esophagus	oesophagus
2	chr3:100467400-100497600	Weak transcription	Fetal Intestine Small	intestine
3	chr3:100469800-100498200	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:100469800-100501400	Weak transcription	Rectal Smooth Muscle	rectum
5	chr3:100470200-100498400	Weak transcription	Right Ventricle	heart
6	chr3:100471000-100495800	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr3:100471600-100500400	Weak transcription	Lung	lung
8	chr3:100471800-100494600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:100471800-100502000	Weak transcription	Brain Anterior Caudate	brain
10	chr3:100472800-100494400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr3:100473800-100496400	Weak transcription	Fetal Intestine Large	intestine
12	chr3:100474400-100494200	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr3:100474400-100500200	Weak transcription	HSMM	muscle
14	chr3:100474400-100501200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr3:100475000-100499000	Weak transcription	Placenta	Placenta
16	chr3:100475600-100520000	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr3:100478400-100496600	Weak transcription	Aorta	Aorta
18	chr3:100478800-100502000	Weak transcription	Psoas Muscle	Psoas
19	chr3:100480200-100493800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr3:100488600-100504600	Weak transcription	Adipose Nuclei	Adipose
21	chr3:100489000-100494400	Weak transcription	Fetal Lung	lung
22	chr3:100489600-100494000	Weak transcription	Gastric	stomach
23	chr3:100489600-100500200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr3:100489800-100494000	Weak transcription	Fetal Stomach	stomach
25	chr3:100489800-100495600	Weak transcription	Ovary	ovary
26	chr3:100489800-100504800	Weak transcription	Left Ventricle	heart
27	chr3:100490000-100494400	Weak transcription	Colon Smooth Muscle	Colon
28	chr3:100491400-100494000	Strong transcription	Osteobl	bone
29	chr3:100492000-100493600	Strong transcription	Muscle Satellite Cultured Cells	--
30	chr3:100492200-100493600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr3:100492400-100501000	Strong transcription	Stomach Smooth Muscle	stomach
32	chr3:100492800-100494600	Strong transcription	HSMMtube	muscle
33	chr3:100493000-100497200	Strong transcription	Fetal Muscle Trunk	muscle
34	chr3:100493000-100497200	Strong transcription	Fetal Muscle Leg	muscle
35	chr3:100493200-100494400	Weak transcription	NHDF-Ad	bronchial
36	chr3:100493200-100494600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr3:100493400-100495400	Weak transcription	Duodenum Smooth Muscle	Duodenum

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