Variant report

Variant	rs11050038
Chromosome Location	chr12:29258327-29258328
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10771462	0.82[AMR][1000 genomes]
rs11049998	0.95[AMR][1000 genomes]
rs11050024	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11050069	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11050080	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11050082	0.85[AMR][1000 genomes]
rs11050085	0.85[AMR][1000 genomes]
rs11050094	0.82[AMR][1000 genomes]
rs11050097	0.80[AMR][1000 genomes]
rs11050105	1.00[JPT][hapmap];0.85[AMR][1000 genomes]
rs11050116	0.83[ASW][hapmap];0.94[JPT][hapmap];0.82[AMR][1000 genomes]
rs11050119	0.94[JPT][hapmap];0.82[AMR][1000 genomes]
rs11050122	0.94[JPT][hapmap]
rs11537408	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11561209	0.96[ASN][1000 genomes]
rs12578244	0.87[AMR][1000 genomes]
rs12578576	0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs4141944	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7136405	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73073792	0.82[AMR][1000 genomes]
rs7308340	0.85[AMR][1000 genomes]
rs7316695	1.00[JPT][hapmap];0.85[AMR][1000 genomes]
rs7954686	0.88[MEX][hapmap]
rs7959020	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7972016	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7973139	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7974723	0.93[ASN][1000 genomes]
rs7976269	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs924108	0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532233	chr12:29009388-29496179	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv995123	chr12:29095272-29571558	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	esv2758301	chr12:29110782-29289849	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv2759888	chr12:29110782-29289849	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11050038	FAR2	cis	cerebellum	SCAN

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:29256800-29259200	Enhancers	Primary T helper cells fromperipheralblood	blood
2	chr12:29256800-29259600	Enhancers	Primary hematopoietic stem cells	blood
3	chr12:29257000-29258400	Enhancers	Primary hematopoietic stem cells short term culture	blood
4	chr12:29257000-29258400	Enhancers	Fetal Thymus	thymus
5	chr12:29257000-29258600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr12:29257000-29259800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr12:29257200-29258400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr12:29257200-29258800	Enhancers	Primary T killer memory cells from peripheral blood	blood
9	chr12:29257200-29259000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
10	chr12:29257400-29258400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
11	chr12:29257400-29258800	Enhancers	Primary T helper cells PMA-I stimulated	--
12	chr12:29257400-29258800	Enhancers	Dnd41	blood
13	chr12:29257600-29258600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
14	chr12:29257600-29258800	Enhancers	Primary T cells from cord blood	blood
15	chr12:29257800-29258800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
16	chr12:29257800-29259800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr12:29258000-29258400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
18	chr12:29258000-29258800	Enhancers	Primary T helper naive cells from peripheral blood	blood
19	chr12:29258000-29259000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
20	chr12:29258200-29258400	Enhancers	Primary T cells fromperipheralblood	blood

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