Variant report

Variant	rs1550858
Chromosome Location	chr2:149293831-149293832
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs12615627	0.87[EUR][1000 genomes]
rs12620020	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12622366	0.88[CEU][hapmap];0.88[CHB][hapmap];0.96[YRI][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12691800	0.96[EUR][1000 genomes]
rs12691802	0.86[CEU][hapmap];0.88[CHB][hapmap];0.93[EUR][1000 genomes]
rs13014625	0.88[CEU][hapmap];0.88[CHB][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs13014829	0.88[CEU][hapmap];0.88[CHB][hapmap];0.94[EUR][1000 genomes]
rs16828718	0.87[GIH][hapmap]
rs1868396	0.96[EUR][1000 genomes]
rs1868397	0.96[EUR][1000 genomes]
rs1975596	0.96[EUR][1000 genomes]
rs4609986	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4972284	0.96[EUR][1000 genomes]
rs4972376	0.95[EUR][1000 genomes]
rs4972379	0.96[EUR][1000 genomes]
rs4972382	0.88[CEU][hapmap];0.88[CHB][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.96[EUR][1000 genomes]
rs4972385	0.88[CEU][hapmap];0.88[CHB][hapmap];0.93[EUR][1000 genomes]
rs55933306	0.87[EUR][1000 genomes]
rs56797270	0.98[EUR][1000 genomes]
rs57835656	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6708007	0.88[CEU][hapmap];0.88[CHB][hapmap];0.94[EUR][1000 genomes]
rs73005293	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73005300	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73005302	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73007306	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73007314	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73007341	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73016733	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7579702	0.93[EUR][1000 genomes]
rs7592232	0.96[ASN][1000 genomes]
rs7592968	0.87[GIH][hapmap];0.80[EUR][1000 genomes]
rs7601936	0.80[EUR][1000 genomes]
rs9287418	0.88[CEU][hapmap];0.88[CHB][hapmap];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012275	chr2:149031668-149316793	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	esv2751831	chr2:149151358-150105603	Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv1000101	chr2:149165813-149361220	Enhancers Strong transcription Genic enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv868861	chr2:149198443-149434604	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv917109	chr2:149198443-149948302	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
6	nsv1004663	chr2:149214090-149373061	Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	esv2762913	chr2:149249683-149345487	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv527539	chr2:149283070-149330251	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:149281400-149296400	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr2:149286200-149295800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr2:149288800-149296800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr2:149292200-149295800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr2:149292200-149295800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr2:149292400-149295600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr2:149292400-149295600	Weak transcription	Fetal Thymus	thymus
8	chr2:149292400-149297400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr2:149292600-149295600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr2:149292600-149297600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr2:149292600-149297600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr2:149292800-149295800	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr2:149292800-149295800	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr2:149292800-149297400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
15	chr2:149292800-149297600	Weak transcription	Monocytes-CD14+_RO01746	blood
16	chr2:149292800-149310400	Weak transcription	Right Atrium	heart
17	chr2:149293000-149297400	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr2:149293000-149297800	Weak transcription	Fetal Lung	lung
19	chr2:149293200-149296600	Weak transcription	Primary T cells fromperipheralblood	blood

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