Variant report

Variant	rs35880454
Chromosome Location	chr1:169618750-169618751
allele	A/G
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:19)

rs_ID	r²[population]
rs10919208	0.90[AFR][1000 genomes]
rs10919214	0.90[AFR][1000 genomes]
rs12123695	0.82[AFR][1000 genomes]
rs12140128	0.89[AFR][1000 genomes]
rs12410141	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12733041	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12737587	0.81[EUR][1000 genomes]
rs1569472	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1569474	0.90[AFR][1000 genomes]
rs1569475	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34126060	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34435738	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35979431	0.83[ASN][1000 genomes]
rs56028024	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71635624	0.96[EUR][1000 genomes]
rs71635628	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71635629	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7535600	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7535804	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[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	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv532586	chr1:169593222-169713184	Weak transcription Transcr. at gene 5' and 3' Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169616600-169619600	Enhancers	Primary T cells from cord blood	blood
2	chr1:169616800-169619600	Enhancers	Primary T helper naive cells from peripheral blood	blood
3	chr1:169616800-169619800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
4	chr1:169616800-169619800	Enhancers	Dnd41	blood
5	chr1:169616800-169620000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
6	chr1:169616800-169620000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
7	chr1:169616800-169620000	Enhancers	Primary T helper cells fromperipheralblood	blood
8	chr1:169617000-169620600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr1:169617400-169619400	Enhancers	Primary T killer memory cells from peripheral blood	blood
10	chr1:169617400-169619800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
11	chr1:169617400-169620000	Enhancers	Thymus	Thymus
12	chr1:169617800-169619600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
13	chr1:169617800-169620000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr1:169618000-169618800	Enhancers	Primary hematopoietic stem cells short term culture	blood
15	chr1:169618000-169619000	Enhancers	Fetal Thymus	thymus
16	chr1:169618000-169619200	Enhancers	Primary T cells fromperipheralblood	blood
17	chr1:169618600-169620000	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr1:169618600-169633800	Weak transcription	Primary neutrophils fromperipheralblood	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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