Variant report

Variant	rs10821016
Chromosome Location	chr9:95521888-95521889
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:95501735..95504314-chr9:95520700..95522204,2	MCF-7	breast:
2	chr9:95515028..95516635-chr9:95519792..95522199,2	K562	blood:
3	chr9:95521437..95523022-chr9:95523421..95525145,2	MCF-7	breast:
4	chr9:95509829..95511659-chr9:95521369..95523860,2	K562	blood:

Extended variants
information (count: 130 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:129)

rs_ID	r²[population]
rs1010823	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821000	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10821001	0.83[ASN][1000 genomes]
rs10821002	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10821003	0.83[ASN][1000 genomes]
rs10821004	0.83[ASN][1000 genomes]
rs10821005	0.82[ASN][1000 genomes]
rs10821007	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10821009	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10821010	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821011	0.85[ASN][1000 genomes]
rs10821012	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821014	0.82[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10821015	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992402	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10992403	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10992404	0.80[EUR][1000 genomes]
rs10992406	0.80[EUR][1000 genomes]
rs10992413	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10992414	0.81[ASN][1000 genomes]
rs10992416	0.83[ASN][1000 genomes]
rs10992417	0.83[ASN][1000 genomes]
rs10992418	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs10992419	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10992420	0.83[ASN][1000 genomes]
rs10992422	0.83[ASN][1000 genomes]
rs10992423	0.83[ASN][1000 genomes]
rs10992426	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10992427	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10992430	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10992431	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10992432	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10992433	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10992434	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10992436	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992437	0.85[ASN][1000 genomes]
rs10992438	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992441	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10992442	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992443	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992444	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992445	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992448	0.84[ASN][1000 genomes]
rs10992451	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992453	0.85[ASN][1000 genomes]
rs10992454	0.80[AFR][1000 genomes]
rs10992456	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992460	0.85[ASN][1000 genomes]
rs10992461	0.85[ASN][1000 genomes]
rs10992462	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992469	0.82[AMR][1000 genomes]
rs10992472	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1125063	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1125064	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11533010	0.83[ASN][1000 genomes]
rs11535540	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12236393	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12236516	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12236747	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12236754	0.85[ASN][1000 genomes]
rs12236788	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12237216	0.80[EUR][1000 genomes]
rs12238691	0.84[ASN][1000 genomes]
rs12683839	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12683944	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12684587	0.86[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs12685080	0.89[ASN][1000 genomes]
rs12685256	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12685257	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12685358	0.83[ASN][1000 genomes]
rs12685780	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12685791	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12686058	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1407944	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1552908	0.88[AMR][1000 genomes]
rs1555574	0.82[AMR][1000 genomes]
rs1874128	0.84[AMR][1000 genomes]
rs1980705	0.83[AMR][1000 genomes]
rs2038686	0.84[AMR][1000 genomes]
rs2181584	0.83[ASN][1000 genomes]
rs2181586	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2274413	0.84[AMR][1000 genomes]
rs2277164	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2277166	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2281888	0.83[AMR][1000 genomes]
rs2296080	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3203916	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3739605	0.82[ASN][1000 genomes]
rs41266683	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4545157	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs556	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56111209	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56203846	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56311406	0.85[ASN][1000 genomes]
rs56339669	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57421019	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57720404	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57737182	0.85[ASN][1000 genomes]
rs58045868	0.81[AMR][1000 genomes]
rs58952648	0.82[ASN][1000 genomes]
rs60173654	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60457563	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60498616	0.84[ASN][1000 genomes]
rs66493272	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs68022962	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs68046436	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7031163	0.85[ASN][1000 genomes]
rs7037961	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs753802	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs753803	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs753804	0.85[ASN][1000 genomes]
rs7850871	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7851947	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7860628	0.83[ASN][1000 genomes]
rs7862106	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7863890	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7864889	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7869529	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7869603	0.84[ASN][1000 genomes]
rs7871537	0.82[AMR][1000 genomes]
rs7875227	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8181065	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs878610	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs879812	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs912259	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs912261	0.80[EUR][1000 genomes]
rs976320	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs976321	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9775970	0.84[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430081	chr9:95502571-95568110	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10821016	BICD2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95503800-95523800	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr9:95509800-95522000	Weak transcription	Liver	Liver
3	chr9:95512000-95523400	Weak transcription	Aorta	Aorta
4	chr9:95512000-95525000	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr9:95512400-95522200	Weak transcription	NHDF-Ad	bronchial
6	chr9:95512400-95525200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr9:95512600-95525400	Weak transcription	A549	lung
8	chr9:95512800-95522200	Weak transcription	HSMM	muscle
9	chr9:95513000-95522200	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr9:95513000-95522400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr9:95513000-95522600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr9:95515600-95522000	Weak transcription	Colon Smooth Muscle	Colon
13	chr9:95515600-95523600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr9:95515600-95524800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr9:95518200-95522200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr9:95518200-95522400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
17	chr9:95518200-95523400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr9:95518400-95522000	Weak transcription	Primary hematopoietic stem cells	blood
19	chr9:95518400-95522000	Weak transcription	Gastric	stomach
20	chr9:95518400-95522000	Weak transcription	Lung	lung
21	chr9:95518400-95523000	Weak transcription	Dnd41	blood
22	chr9:95518400-95523400	Weak transcription	Duodenum Mucosa	Duodenum
23	chr9:95518400-95523600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr9:95518400-95523600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr9:95518400-95523600	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr9:95518400-95523600	Weak transcription	Hela-S3	cervix
27	chr9:95518400-95525000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr9:95518400-95525200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr9:95518400-95525200	Weak transcription	Fetal Intestine Small	intestine
30	chr9:95518600-95522200	Weak transcription	Primary T cells from cord blood	blood
31	chr9:95518600-95522400	Weak transcription	Primary B cells from cord blood	blood
32	chr9:95518600-95522600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr9:95518600-95523800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr9:95518600-95524800	Weak transcription	Fetal Lung	lung
35	chr9:95518600-95525200	Weak transcription	Fetal Intestine Large	intestine
36	chr9:95519200-95525200	Enhancers	Fetal Thymus	thymus
37	chr9:95519400-95522000	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr9:95519400-95525200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr9:95519600-95522600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr9:95520200-95523200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
41	chr9:95520200-95523400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr9:95520200-95523400	Weak transcription	K562	blood
43	chr9:95520200-95523600	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr9:95520200-95524000	Weak transcription	HUES48 Cell Line	embryonic stem cell
45	chr9:95520200-95524000	Weak transcription	Small Intestine	intestine
46	chr9:95520200-95524400	Weak transcription	HUES64 Cell Line	embryonic stem cell
47	chr9:95520200-95524600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr9:95520200-95524800	Weak transcription	Psoas Muscle	Psoas
49	chr9:95520400-95522400	Weak transcription	Placenta	Placenta
50	chr9:95520400-95523400	Weak transcription	H1 Cell Line	embryonic stem cell

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