Variant report

Variant	rs2924255
Chromosome Location	chr17:46324960-46324961
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:46321872..46325036-chr17:46699113..46702600,4	K562	blood:
2	chr17:46304803..46307483-chr17:46322659..46325078,2	K562	blood:
3	chr17:46316932..46321831-chr17:46322420..46326261,9	K562	blood:

Extended variants
information (count: 75 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs1039840	0.88[ASN][1000 genomes]
rs10853093	0.81[CEU][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap]
rs11079815	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11079817	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11651669	0.87[CHD][hapmap];0.88[ASN][1000 genomes]
rs11655781	0.87[CHD][hapmap];0.88[ASN][1000 genomes]
rs12452103	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1349676	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1377201	1.00[CHB][hapmap]
rs1452661	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1452664	0.88[ASN][1000 genomes]
rs1470831	0.84[ASN][1000 genomes]
rs16954700	0.88[ASN][1000 genomes]
rs16954904	0.88[ASN][1000 genomes]
rs16954931	0.88[ASN][1000 genomes]
rs16955493	0.88[ASN][1000 genomes]
rs16956479	0.88[ASN][1000 genomes]
rs188268	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1910574	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs208006	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs208007	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs208013	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs208017	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs208018	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2123342	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2325886	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28439030	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28482329	0.88[ASN][1000 genomes]
rs28551638	0.84[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs2924253	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs2924256	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2924258	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2938471	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2938480	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2938482	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2957932	1.00[CHB][hapmap];0.87[CHD][hapmap];0.94[ASN][1000 genomes]
rs2957933	1.00[CHB][hapmap];0.87[CHD][hapmap];0.94[ASN][1000 genomes]
rs3792693	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4488493	0.88[ASN][1000 genomes]
rs4794427	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.91[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap]
rs4794467	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4794488	0.81[CEU][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap]
rs4794561	0.88[ASN][1000 genomes]
rs4794603	0.88[ASN][1000 genomes]
rs5016303	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs595874	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6504100	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6504101	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6504113	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7207270	0.83[AFR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7208796	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.91[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7210959	0.88[ASN][1000 genomes]
rs7213530	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7215230	0.88[ASN][1000 genomes]
rs7217741	0.88[ASN][1000 genomes]
rs7218167	0.87[CHD][hapmap];0.88[ASN][1000 genomes]
rs7220940	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7225140	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8066529	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.91[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8067485	0.88[ASN][1000 genomes]
rs8071262	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8077814	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8079360	0.88[ASN][1000 genomes]
rs8079809	0.88[ASN][1000 genomes]
rs8080144	0.88[ASN][1000 genomes]
rs8080544	0.88[ASN][1000 genomes]
rs8081199	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8182234	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.91[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap]
rs9303543	0.88[ASN][1000 genomes]
rs9303544	0.82[CHD][hapmap];0.82[ASN][1000 genomes]
rs979746	1.00[CHB][hapmap];0.87[CHD][hapmap];0.94[ASN][1000 genomes]
rs9893405	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9899753	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9904487	0.88[ASN][1000 genomes]
rs9911479	0.88[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2924255	AARSD1	cis	parietal	SCAN
rs2924255	MLX	cis	cerebellum	SCAN
rs2924255	HOXB2	cis	parietal	SCAN

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:46306600-46335400	Weak transcription	Thymus	Thymus
2	chr17:46319600-46372000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr17:46321400-46325000	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr17:46321800-46325400	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr17:46322000-46326000	Weak transcription	Fetal Thymus	thymus
6	chr17:46322400-46328200	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr17:46322400-46328200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr17:46322600-46325000	Enhancers	HUVEC	blood vessel
9	chr17:46322600-46328000	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr17:46322600-46328200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr17:46322600-46328200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr17:46322600-46329400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr17:46322600-46341800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr17:46322600-46342200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr17:46322800-46356200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr17:46323000-46325400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr17:46323000-46370800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr17:46323200-46325600	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr17:46323400-46325000	Flanking Active TSS	A549	lung
20	chr17:46323600-46326600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr17:46323800-46325200	Genic enhancers	Primary T cells from cord blood	blood
22	chr17:46323800-46325600	Enhancers	Fetal Intestine Large	intestine
23	chr17:46323800-46328200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr17:46323800-46330600	Weak transcription	GM12878-XiMat	blood
25	chr17:46324000-46325200	Weak transcription	Primary T helper cells fromperipheralblood	blood
26	chr17:46324200-46355800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr17:46324200-46371600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr17:46324400-46328400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr17:46324600-46326600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr17:46324800-46325000	Flanking Active TSS	K562	blood
31	chr17:46324800-46325200	Weak transcription	Primary T helper cells PMA-I stimulated	--
32	chr17:46324800-46328200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr17:46324800-46328200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr17:46324800-46337000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr17:46324800-46343000	Weak transcription	Primary T killer memory cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links