Variant report

Variant	rs676397
Chromosome Location	chr12:10108433-10108434
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11053522	0.83[ASN][1000 genomes]
rs11053533	0.82[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11053536	0.81[CHB][hapmap];0.85[JPT][hapmap]
rs11053538	0.94[CHB][hapmap];0.86[JPT][hapmap]
rs11053548	0.81[CHB][hapmap]
rs11615825	0.83[ASN][1000 genomes]
rs2273987	0.94[CHB][hapmap];0.86[JPT][hapmap]
rs2922163	0.91[ASN][1000 genomes]
rs2961540	0.88[ASN][1000 genomes]
rs2961541	0.91[ASN][1000 genomes]
rs3110950	0.89[ASN][1000 genomes]
rs3818343	0.94[CHB][hapmap];0.86[JPT][hapmap]
rs556300	0.90[ASN][1000 genomes]
rs611819	0.85[JPT][hapmap]
rs648985	0.90[ASN][1000 genomes]
rs652944	0.94[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs673173	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][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	nsv1044587	chr12:10029514-10123414	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv523050	chr12:10031880-10124373	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv898755	chr12:10069302-10186284	Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv975404	chr12:10102404-10114263	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:10104600-10110200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr12:10104600-10110200	Weak transcription	GM12878-XiMat	blood
3	chr12:10104600-10112200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr12:10104800-10109400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr12:10104800-10110000	Weak transcription	Primary hematopoietic stem cells	blood
6	chr12:10104800-10110000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr12:10104800-10110000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr12:10104800-10110200	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr12:10104800-10110200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr12:10104800-10110200	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr12:10104800-10110200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr12:10104800-10110200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr12:10104800-10110200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr12:10104800-10110200	Weak transcription	Dnd41	blood
15	chr12:10105200-10109600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr12:10105200-10109800	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr12:10107200-10109800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr12:10107800-10111600	Enhancers	Primary T cells from cord blood	blood
19	chr12:10108200-10108800	Enhancers	Primary T helper cells PMA-I stimulated	--
20	chr12:10108200-10108800	Enhancers	Monocytes-CD14+_RO01746	blood
21	chr12:10108400-10108600	Enhancers	Fetal Thymus	thymus

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