Variant report

Variant	rs6904367
Chromosome Location	chr6:25037536-25037537
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	WRNIP1	chr6:25037010-25037685	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:25032692..25035035-chr6:25036206..25038734,3	K562	blood:
2	chr6:24895729..24898166-chr6:25036279..25038018,2	K562	blood:

Variant related genes	Relation type
ENSG00000229313	TF binding region

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10214565	1.00[EUR][1000 genomes]
rs1172085	0.95[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16890115	1.00[EUR][1000 genomes]
rs1880273	1.00[EUR][1000 genomes]
rs303891	0.83[AMR][1000 genomes]
rs554473	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58400813	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59172512	1.00[EUR][1000 genomes]
rs60614435	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6940553	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs733535	0.96[AFR][1000 genomes]
rs73388152	1.00[EUR][1000 genomes]
rs73388164	1.00[EUR][1000 genomes]
rs7765755	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022966	chr6:24763776-25154212	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv538160	chr6:24763776-25154212	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv1023989	chr6:24930362-25285679	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
4	nsv1030634	chr6:24938277-25040161	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv830610	chr6:24951741-25124239	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25028200-25037600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr6:25034600-25038600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr6:25035200-25041200	Weak transcription	Fetal Kidney	kidney
4	chr6:25035200-25044600	Weak transcription	Right Atrium	heart
5	chr6:25035800-25037800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:25035800-25039400	Weak transcription	Liver	Liver
7	chr6:25035800-25040600	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr6:25035800-25041000	Enhancers	Fetal Thymus	thymus
9	chr6:25036000-25038800	Weak transcription	Spleen	Spleen
10	chr6:25036000-25042400	Weak transcription	Lung	lung
11	chr6:25036400-25037600	Enhancers	Thymus	Thymus
12	chr6:25036400-25038000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
13	chr6:25036400-25038000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
14	chr6:25036400-25038600	Enhancers	Primary T killer memory cells from peripheral blood	blood
15	chr6:25036400-25039000	Enhancers	Primary hematopoietic stem cells	blood
16	chr6:25036400-25040600	Enhancers	Primary B cells from peripheral blood	blood
17	chr6:25036400-25041000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr6:25036400-25041000	Weak transcription	Duodenum Mucosa	Duodenum
19	chr6:25036600-25038000	Enhancers	Primary T cells fromperipheralblood	blood
20	chr6:25036600-25038000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
21	chr6:25036600-25038800	Weak transcription	Primary T cells from cord blood	blood
22	chr6:25036600-25038800	Enhancers	Primary T helper naive cells from peripheral blood	blood
23	chr6:25036600-25039000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
24	chr6:25036600-25039400	Enhancers	Primary T helper cells fromperipheralblood	blood
25	chr6:25036600-25040600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr6:25036600-25041200	Weak transcription	NH-A	brain
27	chr6:25036600-25041800	Weak transcription	Primary neutrophils fromperipheralblood	blood
28	chr6:25036800-25037600	Enhancers	Primary hematopoietic stem cells short term culture	blood
29	chr6:25036800-25037600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr6:25037000-25038600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
31	chr6:25037000-25038600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
32	chr6:25037000-25038800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
33	chr6:25037000-25041000	Weak transcription	Primary monocytes fromperipheralblood	blood
34	chr6:25037200-25037600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr6:25037200-25037800	Flanking Active TSS	Dnd41	blood
36	chr6:25037200-25039000	Weak transcription	Monocytes-CD14+_RO01746	blood
37	chr6:25037400-25038600	Enhancers	Primary T helper cells PMA-I stimulated	--
38	chr6:25037400-25038800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links