Variant report

Variant	rs66799972
Chromosome Location	chr21:47902217-47902218
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	chr21:47899894..47903895-chr21:47905294..47908061,4	K562	blood:
2	chr21:47896541..47900368-chr21:47900654..47902567,3	K562	blood:

Extended variants
information (count: 113 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs1007893	0.92[ASN][1000 genomes]
rs1008548	0.83[ASN][1000 genomes]
rs1008549	0.83[ASN][1000 genomes]
rs1029231	0.88[ASN][1000 genomes]
rs10775681	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10854484	0.83[ASN][1000 genomes]
rs11089070	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11700510	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11700596	0.88[ASN][1000 genomes]
rs11701121	0.80[ASN][1000 genomes]
rs11701310	0.87[ASN][1000 genomes]
rs11701569	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11701571	0.86[ASN][1000 genomes]
rs11701815	0.93[ASN][1000 genomes]
rs11701902	0.89[ASN][1000 genomes]
rs11702190	0.83[ASN][1000 genomes]
rs11702278	0.93[ASN][1000 genomes]
rs11702701	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11702704	0.87[ASN][1000 genomes]
rs11702718	0.92[ASN][1000 genomes]
rs11702822	0.83[ASN][1000 genomes]
rs12627084	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1892691	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1892692	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2070432	0.88[ASN][1000 genomes]
rs2070433	0.87[ASN][1000 genomes]
rs2070435	0.87[ASN][1000 genomes]
rs2073380	0.85[ASN][1000 genomes]
rs2096507	0.92[ASN][1000 genomes]
rs2236616	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2268524	0.86[ASN][1000 genomes]
rs2300561	0.88[ASN][1000 genomes]
rs2300562	0.92[ASN][1000 genomes]
rs2839250	0.92[ASN][1000 genomes]
rs2839258	0.92[ASN][1000 genomes]
rs2839269	0.91[ASN][1000 genomes]
rs2839277	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2839278	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2839279	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2839281	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2839287	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2839288	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2839290	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2839295	0.89[ASN][1000 genomes]
rs2839302	0.87[ASN][1000 genomes]
rs2839304	0.87[ASN][1000 genomes]
rs2839311	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2839312	0.88[ASN][1000 genomes]
rs2839314	0.88[ASN][1000 genomes]
rs28613801	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28702984	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4276098	0.90[ASN][1000 genomes]
rs4347941	0.94[ASN][1000 genomes]
rs55744579	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56016846	0.85[ASN][1000 genomes]
rs56134005	0.90[ASN][1000 genomes]
rs56157650	0.88[ASN][1000 genomes]
rs60135034	0.92[ASN][1000 genomes]
rs60290737	0.81[ASN][1000 genomes]
rs60407402	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6518299	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6518300	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs718496	0.93[ASN][1000 genomes]
rs721131	0.88[ASN][1000 genomes]
rs725970	0.84[ASN][1000 genomes]
rs7277986	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7279002	0.90[ASN][1000 genomes]
rs7282515	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73152849	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8127582	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8129305	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8129793	0.82[ASN][1000 genomes]
rs8130209	0.86[ASN][1000 genomes]
rs8132725	0.85[ASN][1000 genomes]
rs9306156	0.86[ASN][1000 genomes]
rs9306157	0.88[ASN][1000 genomes]
rs9637220	0.89[ASN][1000 genomes]
rs9637225	0.87[ASN][1000 genomes]
rs9647244	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9647245	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9975875	0.84[ASN][1000 genomes]
rs9976530	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9979126	0.85[ASN][1000 genomes]
rs9980470	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9981212	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9981387	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:27 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1059230	chr21:46956877-47907990	Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	n/a
2	nsv544491	chr21:46956877-47907990	Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	n/a
3	nsv1065959	chr21:47188878-48091343	Bivalent Enhancer Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	102 gene(s)	inside rSNPs	n/a
4	nsv531580	chr21:47221774-48090317	Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	n/a
5	nsv918103	chr21:47297067-48089510	Genic enhancers Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	99 gene(s)	inside rSNPs	n/a
6	nsv869002	chr21:47297268-47963186	Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	n/a
7	nsv470910	chr21:47353775-48084988	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	n/a
8	nsv1059118	chr21:47398331-48090457	Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	n/a
9	nsv544494	chr21:47398331-48090457	Strong transcription Weak transcription Bivalent Enhancer Enhancers Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	n/a
10	nsv934264	chr21:47401083-48090317	Genic enhancers Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	n/a
11	nsv948761	chr21:47587940-48069930	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	n/a
12	nsv1055239	chr21:47591378-48090317	Enhancers Strong transcription Genic enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	n/a
13	nsv544495	chr21:47591378-48090317	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	n/a
14	nsv949706	chr21:47625544-48069930	Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	n/a
15	nsv529496	chr21:47634193-48090317	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	n/a
16	nsv933061	chr21:47746204-48031515	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	n/a
17	nsv1062858	chr21:47750884-48091343	Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	n/a
18	nsv1056321	chr21:47835146-47973412	Strong transcription Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	n/a
19	nsv917208	chr21:47836346-47988603	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	n/a
20	nsv1058397	chr21:47851176-48091343	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	n/a
21	nsv459312	chr21:47856106-47985655	Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	n/a
22	nsv587998	chr21:47856106-47985655	Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	n/a
23	nsv1065502	chr21:47865215-48091343	Strong transcription Genic enhancers Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	n/a
24	nsv1056152	chr21:47875370-47979259	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	n/a
25	nsv1061442	chr21:47875370-48091343	Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	n/a
26	nsv1059466	chr21:47894705-48096945	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	n/a
27	nsv1061185	chr21:47901250-48096945	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs66799972	DIP2A	cis	Whole Blood	GTEx

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:47880000-47905800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr21:47880000-47916800	Weak transcription	Aorta	Aorta
3	chr21:47880200-47902800	Weak transcription	Brain Cingulate Gyrus	brain
4	chr21:47880200-47903200	Weak transcription	Stomach Mucosa	stomach
5	chr21:47880200-47909400	Weak transcription	A549	lung
6	chr21:47880200-47911600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr21:47880200-47916600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr21:47880400-47906600	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr21:47880400-47908800	Weak transcription	Fetal Brain Male	brain
10	chr21:47880400-47908800	Weak transcription	Rectal Smooth Muscle	rectum
11	chr21:47880400-47909200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr21:47880400-47909200	Weak transcription	NHLF	lung
13	chr21:47880400-47909400	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr21:47880400-47916600	Weak transcription	Fetal Kidney	kidney
15	chr21:47880400-47916600	Weak transcription	HSMMtube	muscle
16	chr21:47880400-47918000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr21:47880400-47918200	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr21:47880400-47931200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr21:47880800-47902600	Weak transcription	Brain Angular Gyrus	brain
20	chr21:47883200-47905200	Weak transcription	Stomach Smooth Muscle	stomach
21	chr21:47883400-47903200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr21:47884800-47906000	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr21:47886200-47906800	Weak transcription	Hela-S3	cervix
24	chr21:47889600-47903400	Weak transcription	Osteobl	bone
25	chr21:47889600-47906800	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr21:47889600-47918200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr21:47889800-47905000	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr21:47889800-47906200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr21:47889800-47907600	Weak transcription	NH-A	brain
30	chr21:47889800-47916800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr21:47890000-47905800	Weak transcription	HMEC	breast
32	chr21:47890000-47909800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr21:47890600-47909200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr21:47891800-47902800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr21:47892200-47906200	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr21:47892600-47902600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
37	chr21:47892600-47902800	Weak transcription	K562	blood
38	chr21:47892600-47903000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr21:47892600-47906000	Weak transcription	Thymus	Thymus
40	chr21:47892600-47906600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr21:47892800-47902600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr21:47892800-47902600	Weak transcription	Right Atrium	heart
43	chr21:47892800-47903200	Weak transcription	Spleen	Spleen
44	chr21:47892800-47903400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr21:47892800-47904800	Weak transcription	Duodenum Mucosa	Duodenum
46	chr21:47892800-47904800	Weak transcription	Fetal Thymus	thymus
47	chr21:47892800-47909200	Weak transcription	Gastric	stomach
48	chr21:47892800-47909400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr21:47892800-47920200	Weak transcription	Small Intestine	intestine
50	chr21:47893000-47905000	Weak transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links