Variant report

Variant	rs16844863
Chromosome Location	chr2:161055315-161055316
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	chr2:161033297..161035700-chr2:161053449..161055429,2	MCF-7	breast:

Extended variants
information (count: 61 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10497213	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs10929965	0.90[JPT][hapmap]
rs13001911	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs16844848	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16844866	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16844875	0.85[JPT][hapmap];1.00[MKK][hapmap]
rs17216980	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs17218566	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs17241282	0.81[JPT][hapmap]
rs17341301	0.86[JPT][hapmap]
rs17830904	0.81[JPT][hapmap]
rs17831161	0.90[JPT][hapmap]
rs17831191	0.90[JPT][hapmap]
rs17831251	0.90[JPT][hapmap]
rs1870102	0.91[ASN][1000 genomes]
rs1870104	0.95[ASN][1000 genomes]
rs2124969	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs2175416	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs2198918	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2305818	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2305819	0.93[CEU][hapmap];0.87[CHB][hapmap];0.94[JPT][hapmap];0.82[EUR][1000 genomes]
rs3749117	0.81[JPT][hapmap]
rs3749119	0.90[JPT][hapmap]
rs3792192	0.81[JPT][hapmap]
rs4292050	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs4664308	0.90[JPT][hapmap]
rs4664317	0.84[ASN][1000 genomes]
rs4665138	0.81[JPT][hapmap]
rs4665140	0.81[JPT][hapmap]
rs4665141	0.81[JPT][hapmap]
rs4665147	0.90[JPT][hapmap]
rs4665161	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4665162	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs55959207	0.91[ASN][1000 genomes]
rs57993273	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59019419	0.98[ASN][1000 genomes]
rs59541669	0.89[ASN][1000 genomes]
rs60608133	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60801510	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60908067	0.82[ASN][1000 genomes]
rs61330151	0.93[ASN][1000 genomes]
rs62175395	0.96[ASN][1000 genomes]
rs6705574	0.86[JPT][hapmap];1.00[MKK][hapmap]
rs6707458	0.90[JPT][hapmap]
rs6719686	0.90[JPT][hapmap]
rs6722275	0.81[JPT][hapmap]
rs6731260	0.82[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap]
rs6732107	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6739867	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs6759836	0.90[JPT][hapmap]
rs72623108	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72623109	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72623111	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs733810	0.90[ASN][1000 genomes]
rs7589820	0.88[ASN][1000 genomes]
rs7595859	0.96[ASN][1000 genomes]
rs877200	0.89[JPT][hapmap]
rs925410	0.90[JPT][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	nsv459929	chr2:160963603-161079435	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv583497	chr2:160963603-161079435	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1001502	chr2:160967864-161079450	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16844863	FCGR2C	trans	lymphoblastoid	seeQTL

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:161029400-161063200	Weak transcription	Fetal Muscle Leg	muscle
2	chr2:161047200-161058800	Weak transcription	Psoas Muscle	Psoas
3	chr2:161048600-161061600	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr2:161049600-161055600	Weak transcription	Fetal Stomach	stomach
5	chr2:161050400-161061200	Weak transcription	Esophagus	oesophagus
6	chr2:161051800-161056600	Weak transcription	Pancreas	Pancrea
7	chr2:161051800-161064600	Weak transcription	Lung	lung
8	chr2:161052000-161058400	Weak transcription	HSMM	muscle
9	chr2:161052200-161064600	Weak transcription	Gastric	stomach
10	chr2:161053200-161064600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr2:161053800-161055400	Enhancers	Skeletal Muscle Female	skeletal muscle
12	chr2:161054000-161055400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr2:161054000-161055400	Flanking Active TSS	NHEK	skin
14	chr2:161054000-161057200	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr2:161054200-161055600	Enhancers	Fetal Intestine Large	intestine
16	chr2:161054400-161056800	Active TSS	Placenta Amnion	Placenta Amnion
17	chr2:161054400-161057000	Active TSS	Breast Myoepithelial Primary Cells	Breast
18	chr2:161054400-161057400	Weak transcription	HSMMtube	muscle
19	chr2:161054600-161057000	Active TSS	HMEC	breast
20	chr2:161055000-161055600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr2:161055000-161055600	Weak transcription	Fetal Intestine Small	intestine
22	chr2:161055000-161056200	Enhancers	Fetal Kidney	kidney
23	chr2:161055000-161056800	Active TSS	Duodenum Mucosa	Duodenum
24	chr2:161055000-161057000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr2:161055000-161057000	Active TSS	Rectal Mucosa Donor 29	rectum
26	chr2:161055000-161059200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr2:161055200-161055800	Active TSS	Stomach Mucosa	stomach
28	chr2:161055200-161056800	Active TSS	Colonic Mucosa	Colon
29	chr2:161055200-161057000	Active TSS	Rectal Mucosa Donor 31	rectum
30	chr2:161055200-161058400	Weak transcription	Skeletal Muscle Male	skeletal muscle

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