Variant report

Variant	rs2006173
Chromosome Location	chr6:28905612-28905613
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]
rs1237485	0.80[EUR][1000 genomes]
rs1476016	0.81[EUR][1000 genomes]
rs2071790	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2157313	0.81[EUR][1000 genomes]
rs2765229	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3130842	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3130889	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3130897	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3131070	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3131074	0.81[EUR][1000 genomes]
rs3131077	0.81[EUR][1000 genomes]
rs3131102	0.80[EUR][1000 genomes]
rs3135323	0.81[EUR][1000 genomes]
rs3135324	0.81[EUR][1000 genomes]
rs3135326	0.80[EUR][1000 genomes]
rs3135327	0.83[EUR][1000 genomes]
rs3135328	0.83[AMR][1000 genomes];0.82[EUR][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	nsv883518	chr6:28792477-28911802	Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	56 gene(s)	inside rSNPs	diseases
2	nsv883519	chr6:28792477-28936556	Transcr. at gene 5' and 3' Genic enhancers Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	57 gene(s)	inside rSNPs	diseases
3	nsv427748	chr6:28831888-28999434	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	62 gene(s)	inside rSNPs	diseases
4	nsv830622	chr6:28861667-29015804	Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	59 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28901200-28906600	Weak transcription	K562	blood
2	chr6:28903000-28907200	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr6:28903000-28907600	Weak transcription	Primary B cells from cord blood	blood
4	chr6:28903200-28907200	Weak transcription	Primary monocytes fromperipheralblood	blood
5	chr6:28903800-28907200	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr6:28904600-28907800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr6:28905200-28907800	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr6:28905200-28907800	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr6:28905200-28907800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr6:28905200-28907800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr6:28905400-28907800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr6:28905400-28907800	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr6:28905600-28907800	Weak transcription	Primary T helper naive cells 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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