Variant report

Variant	rs10882934
Chromosome Location	chr10:99170995-99170996
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:99168420..99171279-chr10:99172405..99174703,2	K562	blood:
2	chr10:99165782..99177128-chr10:99179856..99189832,30	MCF-7	breast:
3	chr10:99170419..99173744-chr10:99178891..99183198,3	MCF-7	breast:
4	chr10:99168511..99173804-chr10:99184850..99187816,7	MCF-7	breast:
5	chr10:99166045..99168504-chr10:99170322..99173005,2	K562	blood:
6	chr10:99166892..99169975-chr10:99170359..99172836,3	MCF-7	breast:
7	chr10:99170047..99172632-chr10:99208471..99210539,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171307	Chromatin interaction
ENSG00000200737	Chromatin interaction
ENSG00000171314	Chromatin interaction
ENSG00000224474	Chromatin interaction

Extended variants
information (count: 113 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs10444013	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10444014	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10444016	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1048442	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10786336	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10786337	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10786338	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10786339	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10786340	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10786341	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10786342	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10786343	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10786344	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10786345	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10786346	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10786347	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10882903	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10882904	0.82[EUR][1000 genomes]
rs10882907	0.84[EUR][1000 genomes]
rs10882908	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10882909	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10882910	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10882911	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10882912	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10882913	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10882914	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10882915	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10882916	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10882917	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10882922	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10882924	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10882926	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10882929	0.80[AMR][1000 genomes]
rs10882930	0.80[AMR][1000 genomes]
rs10882931	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11189165	0.84[EUR][1000 genomes]
rs11189168	0.84[EUR][1000 genomes]
rs11189172	0.87[EUR][1000 genomes]
rs11189174	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11189175	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11189177	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11189178	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11189179	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11189180	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11189181	0.83[EUR][1000 genomes]
rs11189182	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11189183	0.86[EUR][1000 genomes]
rs11189191	0.89[EUR][1000 genomes]
rs11189192	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189195	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11189196	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189197	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189200	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11189204	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11189206	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11189208	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11812223	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11814021	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11817852	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11817875	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12258560	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12266723	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12359257	0.87[EUR][1000 genomes]
rs1537645	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1537646	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17112674	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17112676	0.84[EUR][1000 genomes]
rs1810983	0.84[EUR][1000 genomes]
rs2275089	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2275090	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2297667	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2297668	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2297988	0.82[EUR][1000 genomes]
rs3737194	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3814553	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3818787	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3818908	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4635018	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs60237341	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs61861912	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61863815	0.84[EUR][1000 genomes]
rs61863819	0.87[EUR][1000 genomes]
rs6584126	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6584127	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6584128	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7074511	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7078004	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7078782	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7084654	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7088410	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7092350	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7092499	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7096801	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7895695	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7896100	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7903562	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7909345	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7918742	0.81[EUR][1000 genomes]
rs7921585	0.81[EUR][1000 genomes]
rs7922512	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7923385	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs869967	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs954149	0.84[EUR][1000 genomes]
rs9787426	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9787454	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9887991	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9888026	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9888116	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9888117	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv467438	chr10:99126249-99173870	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv552024	chr10:99126249-99173870	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv467440	chr10:99134784-99204791	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv552025	chr10:99134784-99204791	Strong transcription Genic enhancers Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10882934	RRP12	cis	Heart Left Ventricle	GTEx
rs10882934	RRP12	cis	Muscle Skeletal	GTEx

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99161600-99178800	Weak transcription	Fetal Stomach	stomach
2	chr10:99161600-99185200	Weak transcription	Pancreas	Pancrea
3	chr10:99167400-99171200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr10:99167400-99171200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr10:99167400-99171200	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr10:99167400-99172400	Weak transcription	Primary T cells from cord blood	blood
7	chr10:99167400-99174000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr10:99167400-99174800	Weak transcription	NHDF-Ad	bronchial
9	chr10:99167400-99176200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr10:99167400-99178000	Weak transcription	Fetal Muscle Trunk	muscle
11	chr10:99167400-99179000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr10:99167400-99185200	Weak transcription	Fetal Lung	lung
13	chr10:99167400-99185400	Weak transcription	Gastric	stomach
14	chr10:99167600-99171000	Weak transcription	NH-A	brain
15	chr10:99167600-99171000	Weak transcription	Osteobl	bone
16	chr10:99167600-99171200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr10:99167600-99171200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr10:99167600-99171200	Weak transcription	Fetal Kidney	kidney
19	chr10:99167600-99172400	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr10:99167600-99172400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr10:99167600-99172400	Weak transcription	GM12878-XiMat	blood
22	chr10:99167600-99172600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
23	chr10:99167600-99172600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr10:99167600-99172600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr10:99167600-99172600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr10:99167600-99172600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr10:99167600-99172600	Weak transcription	Fetal Thymus	thymus
28	chr10:99167600-99172800	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr10:99167600-99172800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr10:99167600-99172800	Weak transcription	Thymus	Thymus
31	chr10:99167600-99172800	Weak transcription	HUVEC	blood vessel
32	chr10:99167600-99173400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr10:99167600-99173400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr10:99167600-99173400	Weak transcription	Esophagus	oesophagus
35	chr10:99167600-99173600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr10:99167600-99173600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr10:99167600-99174800	Weak transcription	Brain Anterior Caudate	brain
38	chr10:99167600-99177800	Weak transcription	Fetal Intestine Large	intestine
39	chr10:99167600-99178000	Weak transcription	Fetal Muscle Leg	muscle
40	chr10:99167600-99178400	Weak transcription	Right Atrium	heart
41	chr10:99167600-99185200	Weak transcription	Fetal Intestine Small	intestine
42	chr10:99167600-99185200	Weak transcription	Left Ventricle	heart
43	chr10:99167800-99172400	Weak transcription	Primary T helper cells PMA-I stimulated	--
44	chr10:99167800-99172600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
45	chr10:99167800-99172600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
46	chr10:99167800-99173400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
47	chr10:99167800-99178000	Weak transcription	A549	lung
48	chr10:99168000-99171200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr10:99168000-99173400	Weak transcription	Primary hematopoietic stem cells	blood
50	chr10:99168600-99171200	Weak transcription	K562	blood

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