Variant report

Variant	rs3135405
Chromosome Location	chr6:33311242-33311243
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:33289513..33291515-chr6:33310493..33313165,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204209	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1014779	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1061783	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1800838	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2013891	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2071888	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2071889	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2395379	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2894334	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3106190	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3106195	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3130014	0.86[ASN][1000 genomes]
rs3130016	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3130018	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3130099	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3130100	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3130101	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3130102	0.84[EUR][1000 genomes]
rs3130262	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3130263	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3130264	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3130265	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3130266	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3130267	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3130269	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3130270	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3130271	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3135407	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3135408	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3135409	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs446735	0.84[EUR][1000 genomes]
rs456261	0.86[EUR][1000 genomes]
rs463260	0.84[EUR][1000 genomes]
rs464865	0.84[EUR][1000 genomes]
rs9277968	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830634	chr6:33161217-33330745	Flanking Active TSS Genic enhancers Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	139 gene(s)	inside rSNPs	diseases
2	nsv830635	chr6:33238005-33413787	Active TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	129 gene(s)	inside rSNPs	diseases
3	nsv969386	chr6:33297665-33325116	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33291800-33317400	Weak transcription	Right Atrium	heart
2	chr6:33307200-33312200	Weak transcription	K562	blood
3	chr6:33308800-33311800	Enhancers	Primary T cells fromperipheralblood	blood
4	chr6:33309200-33312000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
5	chr6:33309600-33311600	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr6:33309800-33311400	Enhancers	Primary B cells from peripheral blood	blood
7	chr6:33309800-33311400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
8	chr6:33309800-33311400	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr6:33309800-33311600	Enhancers	Primary T helper cells PMA-I stimulated	--
10	chr6:33309800-33312000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
11	chr6:33310000-33311400	Enhancers	Primary T killer memory cells from peripheral blood	blood
12	chr6:33310000-33311800	Enhancers	Primary B cells from cord blood	blood
13	chr6:33310000-33311800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
14	chr6:33310000-33312000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
15	chr6:33310200-33311600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
16	chr6:33310200-33312000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr6:33310800-33311400	Enhancers	Primary T cells from cord blood	blood
18	chr6:33310800-33312000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
19	chr6:33311200-33311400	Enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr6:33311200-33311400	Enhancers	GM12878-XiMat	blood
21	chr6:33311200-33311600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr6:33311200-33311600	Enhancers	Rectal Mucosa Donor 29	rectum
23	chr6:33311200-33311600	Enhancers	Thymus	Thymus
24	chr6:33311200-33312000	Enhancers	Primary hematopoietic stem cells	blood
25	chr6:33311200-33312200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr6:33311200-33314000	Enhancers	Fetal Thymus	thymus

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