Variant report

Variant	rs10882903
Chromosome Location	chr10:99115584-99115585
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:99093680..99095847-chr10:99114735..99116440,2	MCF-7	breast:
2	chr10:99115036..99117967-chr10:99132935..99135217,2	K562	blood:
3	chr10:99091407..99096076-chr10:99110583..99117776,8	MCF-7	breast:
4	chr10:99089670..99092667-chr10:99113757..99116464,3	MCF-7	breast:
5	chr10:99092017..99094354-chr10:99114011..99116551,2	K562	blood:
6	chr10:99113531..99116143-chr10:99121714..99124920,3	MCF-7	breast:
7	chr10:99114802..99116832-chr10:99128580..99131227,2	K562	blood:
8	chr10:98970157..98971031-chr10:99114717..99115659,2	MCF-7	breast:
9	chr10:99109959..99112928-chr10:99114627..99116420,2	K562	blood:
10	chr10:99037940..99038860-chr10:99115149..99115993,4	MCF-7	breast:
11	chr10:98993826..98994564-chr10:99114704..99115929,4	MCF-7	breast:
12	chr10:99115003..99117234-chr10:99118268..99120611,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000225850	Chromatin interaction
ENSG00000181274	Chromatin interaction
ENSG00000052749	Chromatin interaction

Extended variants
information (count: 134 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:127)

rs_ID	r²[population]
rs10444013	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10444014	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10444016	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1048442	0.87[CEU][hapmap];0.80[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1048445	0.85[JPT][hapmap];0.83[ASN][1000 genomes]
rs10786336	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10786337	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10786338	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10786339	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10786340	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10786341	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10786342	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10786343	0.83[EUR][1000 genomes]
rs10786344	0.83[CEU][hapmap];0.95[CHB][hapmap];0.80[JPT][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10786345	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10786346	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10882900	0.85[EUR][1000 genomes]
rs10882904	0.95[CEU][hapmap];0.85[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10882907	0.95[CEU][hapmap];0.85[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10882908	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10882909	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10882910	0.87[CEU][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10882911	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10882912	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10882913	0.87[CEU][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10882914	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10882915	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10882916	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10882917	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10882922	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10882924	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10882926	0.87[CEU][hapmap];0.80[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10882931	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10882934	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11189144	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11189156	0.82[ASN][1000 genomes]
rs11189157	0.86[CEU][hapmap];0.83[ASN][1000 genomes]
rs11189159	0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs11189163	0.83[ASN][1000 genomes]
rs11189165	0.96[CEU][hapmap];0.81[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11189167	0.83[ASN][1000 genomes]
rs11189168	0.95[CEU][hapmap];0.85[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11189172	0.87[CEU][hapmap];0.80[JPT][hapmap];0.94[EUR][1000 genomes]
rs11189173	0.82[CEU][hapmap]
rs11189174	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11189175	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11189177	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11189178	0.86[CEU][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11189179	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11189180	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11189181	0.90[EUR][1000 genomes]
rs11189182	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11189183	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11189191	0.92[EUR][1000 genomes]
rs11189192	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11189195	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11189196	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11189197	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11189200	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11189204	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11189206	0.84[CEU][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11812223	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11814021	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11817852	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11817875	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12258560	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12266723	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12359257	0.88[CEU][hapmap];0.94[EUR][1000 genomes]
rs12415424	0.83[ASN][1000 genomes]
rs1537645	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1537646	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1547328	0.83[ASN][1000 genomes]
rs17112674	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17112676	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17504745	0.82[ASN][1000 genomes]
rs1810983	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2275089	0.87[CEU][hapmap];0.80[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2275090	0.87[CEU][hapmap];0.80[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2275581	0.90[CEU][hapmap];0.85[JPT][hapmap];0.82[ASN][1000 genomes]
rs2275582	0.91[CEU][hapmap];0.81[JPT][hapmap];0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2297667	0.87[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2297668	0.87[CEU][hapmap];0.80[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2297988	0.95[CEU][hapmap];0.85[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2861878	0.83[ASN][1000 genomes]
rs3737194	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3814553	0.87[CEU][hapmap];0.80[JPT][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3818787	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3818908	0.88[CEU][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4268448	0.82[ASN][1000 genomes]
rs4635018	0.87[CEU][hapmap];0.80[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs60237341	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61861912	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61863813	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61863815	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61863816	0.83[ASN][1000 genomes]
rs61863819	0.94[EUR][1000 genomes]
rs6584126	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6584127	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6584128	0.83[CEU][hapmap];0.95[CHB][hapmap];0.80[JPT][hapmap];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7074511	0.90[CEU][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7078004	0.87[CEU][hapmap];0.80[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7078782	0.84[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7084654	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7088410	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7092350	0.87[CEU][hapmap];0.80[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7092499	0.87[CEU][hapmap];0.80[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7096801	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7895695	0.82[CEU][hapmap]
rs7896100	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7903562	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7905026	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7909345	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7917752	0.83[ASN][1000 genomes]
rs7918742	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7918948	0.90[CEU][hapmap];0.83[ASN][1000 genomes]
rs7921585	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7922512	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7923385	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7924254	0.83[ASN][1000 genomes]
rs869967	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs954149	0.95[CEU][hapmap];0.85[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9787426	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9787454	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9887991	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9888026	0.87[CEU][hapmap];0.80[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9888116	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9888117	0.87[CEU][hapmap];0.80[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1045553	chr10:98944397-99122203	Strong transcription Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv540750	chr10:98944397-99122203	Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv831952	chr10:98998344-99145924	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv895914	chr10:99006083-99131676	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
6	nsv825533	chr10:99070570-99115599	Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
7	nsv825534	chr10:99081505-99115599	Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10882903	RRP12	cis	Heart Left Ventricle	GTEx
rs10882903	RRP12	cis	Muscle Skeletal	GTEx
rs10882903	RP11-452K12.7	cis	Whole Blood	GTEx
rs10882903	RRP12	cis	Whole Blood	GTEx

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99095400-99115600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr10:99095400-99115600	Weak transcription	Left Ventricle	heart
3	chr10:99095400-99115600	Weak transcription	Right Ventricle	heart
4	chr10:99097400-99116000	Weak transcription	Hela-S3	cervix
5	chr10:99097600-99115800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr10:99098200-99116200	Weak transcription	Brain Angular Gyrus	brain
7	chr10:99099400-99115600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr10:99103000-99116000	Weak transcription	Brain Germinal Matrix	brain
9	chr10:99106800-99116400	Weak transcription	Aorta	Aorta
10	chr10:99107000-99131800	Weak transcription	Fetal Kidney	kidney
11	chr10:99107200-99115600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr10:99107200-99116000	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr10:99107200-99129200	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr10:99107400-99116000	Weak transcription	Primary T cells from cord blood	blood
15	chr10:99107600-99116000	Weak transcription	Fetal Thymus	thymus
16	chr10:99107800-99117600	Weak transcription	Fetal Lung	lung
17	chr10:99108200-99116000	Weak transcription	Esophagus	oesophagus
18	chr10:99108400-99115800	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr10:99109000-99115600	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr10:99109000-99157800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr10:99109400-99118400	Weak transcription	HMEC	breast
22	chr10:99109400-99120400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr10:99109600-99115600	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr10:99109600-99115600	Strong transcription	Fetal Muscle Trunk	muscle
25	chr10:99109600-99115600	Weak transcription	Lung	lung
26	chr10:99109600-99116000	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr10:99109600-99120600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr10:99109600-99157800	Strong transcription	Fetal Stomach	stomach
29	chr10:99109800-99115600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr10:99109800-99115600	Weak transcription	Stomach Smooth Muscle	stomach
31	chr10:99109800-99115800	Weak transcription	Colon Smooth Muscle	Colon
32	chr10:99109800-99116000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr10:99109800-99116400	Weak transcription	Small Intestine	intestine
34	chr10:99109800-99118400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr10:99109800-99118400	Weak transcription	Rectal Smooth Muscle	rectum
36	chr10:99110000-99115600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr10:99110200-99118600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr10:99110400-99118400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr10:99110600-99115800	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr10:99110600-99132800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
41	chr10:99110800-99115600	Weak transcription	Fetal Intestine Large	intestine
42	chr10:99110800-99115600	Weak transcription	HSMMtube	muscle
43	chr10:99110800-99139800	Weak transcription	Stomach Mucosa	stomach
44	chr10:99111200-99115600	Weak transcription	Ovary	ovary
45	chr10:99111200-99121600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr10:99111400-99115600	Weak transcription	Placenta	Placenta
47	chr10:99111600-99115800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr10:99111600-99141800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr10:99112200-99115800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr10:99112200-99116200	Weak transcription	HSMM	muscle

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