Variant report

Variant	rs13208229
Chromosome Location	chr6:5829760-5829761
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs11757934	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11961267	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13204941	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13205062	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13205213	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13208150	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13218554	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13218657	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13218815	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13218954	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13219208	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13219593	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13219662	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13219875	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13219882	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13220220	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1359052	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1407795	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1819201	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1830685	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1830686	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1830687	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1830688	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35541713	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4370407	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4604310	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57758371	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59550778	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9378987	0.84[ASN][1000 genomes]
rs9378988	0.82[ASN][1000 genomes]
rs9392716	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9392718	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9405873	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9405874	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9504540	0.85[EUR][1000 genomes]
rs9504542	0.84[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	nsv5183	chr6:5821731-5866796	Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv970075	chr6:5829270-5841514	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats	n/a	n/a	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5825000-5832000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr6:5825400-5830600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr6:5825400-5830600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr6:5826600-5831600	Enhancers	Primary neutrophils fromperipheralblood	blood
5	chr6:5827400-5835000	Enhancers	Fetal Thymus	thymus
6	chr6:5827600-5831600	Enhancers	Primary T cells from cord blood	blood
7	chr6:5828000-5831600	Weak transcription	Right Atrium	heart
8	chr6:5828200-5833800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:5828400-5830000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr6:5828400-5831600	Weak transcription	Fetal Muscle Leg	muscle
11	chr6:5828800-5830000	Enhancers	Primary T killer memory cells from peripheral blood	blood
12	chr6:5828800-5831600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
13	chr6:5828800-5831600	Enhancers	Primary T helper cells PMA-I stimulated	--
14	chr6:5828800-5831600	Weak transcription	Thymus	Thymus
15	chr6:5829000-5830400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr6:5829000-5830600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr6:5829000-5830800	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr6:5829000-5831000	Weak transcription	Primary B cells from peripheral blood	blood
19	chr6:5829000-5831600	Enhancers	Primary T helper cells fromperipheralblood	blood
20	chr6:5829200-5831800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr6:5829200-5835000	Enhancers	Primary T cells fromperipheralblood	blood
22	chr6:5829400-5831000	Weak transcription	Primary B cells from cord blood	blood
23	chr6:5829400-5831600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr6:5829600-5830600	Weak transcription	Primary monocytes fromperipheralblood	blood
25	chr6:5829600-5830800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr6:5829600-5831200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr6:5829600-5831600	Weak transcription	Primary hematopoietic stem cells	blood
28	chr6:5829600-5831600	Weak transcription	Cortex derived primary cultured neurospheres	brain

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