Variant report

Variant	rs5914874
Chromosome Location	chrX:56996365-56996366
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	chrX:56993831..56996506-chrX:57021061..57023575,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204271	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10521485	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs150099	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs204166	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs2071722	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap]
rs378487	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap]
rs5914036	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.97[TSI][hapmap]
rs5914037	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.90[TSI][hapmap]
rs5914052	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs5914897	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.90[TSI][hapmap]
rs5960235	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs5960817	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap]
rs6612746	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs6612757	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs697664	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.97[TSI][hapmap]
rs707346	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap]
rs912956	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.90[TSI][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs5914874	SPIN-2	cis	multi-tissue	Pritchard

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:56980200-57008400	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chrX:56980200-57009600	Weak transcription	A549	lung
3	chrX:56980400-57020800	Weak transcription	Brain Angular Gyrus	brain
4	chrX:56980600-57010200	Weak transcription	Rectal Smooth Muscle	rectum
5	chrX:56981400-57008600	Weak transcription	Brain Germinal Matrix	brain
6	chrX:56981600-57000200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chrX:56981800-57002200	Weak transcription	Liver	Liver
8	chrX:56982600-57003400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chrX:56984800-57001800	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chrX:56986800-57019400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chrX:56987400-57021200	Weak transcription	Psoas Muscle	Psoas
12	chrX:56988000-57021000	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chrX:56988800-57020600	Weak transcription	Brain Cingulate Gyrus	brain
14	chrX:56989600-57001000	Weak transcription	Left Ventricle	heart
15	chrX:56990600-57001800	Weak transcription	Fetal Intestine Large	intestine
16	chrX:56990600-57011800	Weak transcription	Primary T cells fromperipheralblood	blood
17	chrX:56991000-57001400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chrX:56991200-57010400	Weak transcription	HSMM	muscle
19	chrX:56991800-57001400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chrX:56992800-57004400	Weak transcription	GM12878-XiMat	blood
21	chrX:56993000-57021000	Weak transcription	Fetal Brain Male	brain
22	chrX:56993200-57002200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chrX:56993200-57020600	Weak transcription	HSMMtube	muscle
24	chrX:56993400-57001800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chrX:56993800-57002200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chrX:56993800-57002200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chrX:56994000-57001200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chrX:56994400-57002200	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chrX:56994400-57003400	Weak transcription	Duodenum Mucosa	Duodenum
30	chrX:56994400-57008200	Weak transcription	Adipose Nuclei	Adipose
31	chrX:56994400-57021000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chrX:56994600-57004800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chrX:56994800-57000800	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chrX:56994800-57020600	Weak transcription	Brain Substantia Nigra	brain
35	chrX:56995400-57021000	Weak transcription	Fetal Stomach	stomach
36	chrX:56995400-57021200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
37	chrX:56995600-57020800	Weak transcription	Muscle Satellite Cultured Cells	--
38	chrX:56995800-56996400	Strong transcription	H1 Cell Line	embryonic stem cell
39	chrX:56995800-57021000	Weak transcription	Hela-S3	cervix
40	chrX:56996000-57001600	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chrX:56996000-57021000	Weak transcription	NHDF-Ad	bronchial
42	chrX:56996200-57003000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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