Variant report

Variant	rs10177471
Chromosome Location	chr2:231480108-231480109
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10183030	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10190300	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10206720	0.87[ASN][1000 genomes]
rs11886067	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11902476	0.85[ASN][1000 genomes]
rs12694877	0.89[ASN][1000 genomes]
rs12988735	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs13004009	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1305968	0.80[ASN][1000 genomes]
rs1474101	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28612399	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28802613	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28871949	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4343455	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4972963	0.83[AMR][1000 genomes]
rs4972964	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4973338	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6436952	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6436953	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6436955	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6436956	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6436957	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6436958	0.84[ASN][1000 genomes]
rs6436959	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6726627	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6748337	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6754758	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7572912	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7575688	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7587015	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv875955	chr2:231440555-231500805	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv3431137	chr2:231480049-231480516	Enhancers Flanking Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:231472800-231497200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr2:231476200-231481000	Weak transcription	Hela-S3	cervix
3	chr2:231476600-231481200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr2:231476800-231481200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr2:231476800-231482000	Weak transcription	Primary T cells from cord blood	blood
6	chr2:231477200-231480400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr2:231478600-231480200	Enhancers	Primary T helper cells PMA-I stimulated	--
8	chr2:231478600-231480800	Enhancers	Primary B cells from cord blood	blood
9	chr2:231478600-231481400	Enhancers	Primary B cells from peripheral blood	blood
10	chr2:231479200-231481800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr2:231479200-231482000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr2:231479400-231480200	Enhancers	Fetal Thymus	thymus
13	chr2:231479600-231480200	Flanking Active TSS	GM12878-XiMat	blood
14	chr2:231479800-231480200	Enhancers	Thymus	Thymus
15	chr2:231479800-231480200	Enhancers	A549	lung
16	chr2:231479800-231480200	Enhancers	Osteobl	bone
17	chr2:231479800-231481800	Enhancers	HMEC	breast
18	chr2:231479800-231482000	Enhancers	NH-A	brain
19	chr2:231479800-231482000	Enhancers	NHDF-Ad	bronchial
20	chr2:231479800-231482600	Enhancers	Muscle Satellite Cultured Cells	--
21	chr2:231479800-231482600	Enhancers	HSMM	muscle
22	chr2:231479800-231482600	Enhancers	NHEK	skin
23	chr2:231479800-231482800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr2:231480000-231481000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr2:231480000-231481000	Weak transcription	Primary T helper cells fromperipheralblood	blood
26	chr2:231480000-231481200	Weak transcription	Primary T cells fromperipheralblood	blood
27	chr2:231480000-231481200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr2:231480000-231482600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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