Variant report

Variant	rs6888683
Chromosome Location	chr5:75957626-75957627
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:75952527..75955158-chr5:75956774..75959814,3	K562	blood:
2	chr5:75956449..75958855-chr5:75961407..75964315,2	MCF-7	breast:
3	chr5:75952316..75955488-chr5:75956755..75959814,4	K562	blood:

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs2227777	1.00[EUR][1000 genomes]
rs2227803	1.00[EUR][1000 genomes]
rs2227810	1.00[EUR][1000 genomes]
rs6869176	1.00[EUR][1000 genomes]
rs73131649	1.00[EUR][1000 genomes]
rs73131650	1.00[EUR][1000 genomes]
rs9918276	1.00[EUR][1000 genomes]
rs9918278	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	nsv1019669	chr5:75836365-76477788	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv1035135	chr5:75927027-76092058	Strong transcription Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:75882600-75969400	Weak transcription	Stomach Mucosa	stomach
2	chr5:75943800-75986600	Weak transcription	Gastric	stomach
3	chr5:75945200-75976200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr5:75945200-75976400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr5:75945200-76001000	Strong transcription	Monocytes-CD14+_RO01746	blood
6	chr5:75945600-75976600	Strong transcription	Liver	Liver
7	chr5:75945800-75970400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr5:75946000-75958600	Weak transcription	Fetal Stomach	stomach
9	chr5:75946000-75959000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr5:75946000-75967000	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr5:75946200-75976000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr5:75946400-76001000	Strong transcription	Primary monocytes fromperipheralblood	blood
13	chr5:75946600-75975000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr5:75947000-75970600	Weak transcription	Small Intestine	intestine
15	chr5:75947800-75981800	Strong transcription	Primary T cells from cord blood	blood
16	chr5:75947800-75992000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
17	chr5:75948000-75976200	Strong transcription	Primary T cells fromperipheralblood	blood
18	chr5:75948000-75976200	Strong transcription	Primary T helper cells fromperipheralblood	blood
19	chr5:75948000-75976400	Strong transcription	Placenta	Placenta
20	chr5:75948000-76004600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr5:75948400-75967000	Strong transcription	Primary neutrophils fromperipheralblood	blood
22	chr5:75948600-75958400	Strong transcription	Primary B cells from cord blood	blood
23	chr5:75948600-75958600	Weak transcription	Fetal Intestine Small	intestine
24	chr5:75949200-75986600	Weak transcription	GM12878-XiMat	blood
25	chr5:75950600-75969000	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr5:75950800-75999400	Weak transcription	Ovary	ovary
27	chr5:75951800-76001400	Weak transcription	Rectal Smooth Muscle	rectum
28	chr5:75952600-75958800	Strong transcription	Primary hematopoietic stem cells	blood
29	chr5:75952800-75975400	Strong transcription	Primary T helper cells PMA-I stimulated	--
30	chr5:75953000-75968400	Weak transcription	Fetal Intestine Large	intestine
31	chr5:75953000-75975400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr5:75953400-75960800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr5:75953400-75986000	Weak transcription	Spleen	Spleen
34	chr5:75953600-75959000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr5:75954800-75965200	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr5:75955000-75980800	Weak transcription	Lung	lung
37	chr5:75955000-75996600	Weak transcription	HUES48 Cell Line	embryonic stem cell
38	chr5:75955200-75958200	Enhancers	HUVEC	blood vessel
39	chr5:75955400-75965400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr5:75955400-75980400	Weak transcription	Primary B cells from peripheral blood	blood
41	chr5:75955600-75970400	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr5:75955800-75965000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr5:75956000-75958000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr5:75956000-75958000	Weak transcription	Pancreas	Pancrea
45	chr5:75956000-75960200	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr5:75956000-75960200	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr5:75956000-75961200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
48	chr5:75956000-75963200	Weak transcription	HepG2	liver
49	chr5:75956000-75965000	Weak transcription	Fetal Thymus	thymus
50	chr5:75956000-75965200	Weak transcription	Colonic Mucosa	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links