Variant report

Variant	rs6669300
Chromosome Location	chr1:92009230-92009231
allele	A/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:19)

rs_ID	r²[population]
rs10782970	1.00[EUR][1000 genomes]
rs11164959	1.00[AMR][1000 genomes]
rs11165144	1.00[EUR][1000 genomes]
rs11165243	1.00[EUR][1000 genomes]
rs11799812	1.00[AMR][1000 genomes]
rs12057280	1.00[EUR][1000 genomes]
rs12075049	1.00[EUR][1000 genomes]
rs13447567	1.00[EUR][1000 genomes]
rs13447569	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1508591	1.00[EUR][1000 genomes]
rs17131494	1.00[EUR][1000 genomes]
rs17131517	1.00[EUR][1000 genomes]
rs477003	1.00[EUR][1000 genomes]
rs539048	1.00[EUR][1000 genomes]
rs544077	1.00[EUR][1000 genomes]
rs546872	1.00[EUR][1000 genomes]
rs59574281	1.00[AMR][1000 genomes]
rs72952927	1.00[EUR][1000 genomes]
rs7520738	1.00[EUR][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	nsv949516	chr1:91644418-92109261	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv1009560	chr1:91897078-92270781	Enhancers Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats 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	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:91967800-92009600	Weak transcription	Thymus	Thymus
2	chr1:92003000-92013800	Weak transcription	Spleen	Spleen
3	chr1:92003600-92018000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr1:92006600-92012600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr1:92006600-92016400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr1:92007800-92012600	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr1:92008000-92010800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr1:92008000-92011400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr1:92008000-92011400	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr1:92008000-92013000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr1:92008200-92010600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr1:92008200-92011200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr1:92008600-92012400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr1:92008800-92010800	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr1:92008800-92011200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr1:92009000-92010600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr1:92009000-92013600	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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