Variant report

Variant	rs10882900
Chromosome Location	chr10:99100432-99100433
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	chr10:99091827..99095010-chr10:99100053..99102493,4	K562	blood:
2	chr10:99092885..99094925-chr10:99098939..99101611,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000181274	Chromatin interaction
ENSG00000225850	Chromatin interaction

Extended variants
information (count: 121 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:114)

rs_ID	r²[population]
rs1048442	0.88[CHB][hapmap];0.80[ASN][1000 genomes]
rs1048445	0.94[CHB][hapmap];0.84[JPT][hapmap];0.92[ASN][1000 genomes]
rs10786328	0.80[ASN][1000 genomes]
rs10786336	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10786337	0.81[ASN][1000 genomes]
rs10786339	0.82[ASN][1000 genomes]
rs10786340	0.82[ASN][1000 genomes]
rs10786341	0.80[ASN][1000 genomes]
rs10882888	0.94[CHB][hapmap];0.82[JPT][hapmap]
rs10882903	0.85[EUR][1000 genomes]
rs10882904	0.94[CHB][hapmap];0.84[JPT][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10882907	0.94[CHB][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10882908	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10882909	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10882910	0.81[CHB][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10882911	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10882912	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10882913	0.83[CHB][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10882914	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10882915	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10882916	0.82[ASN][1000 genomes]
rs10882917	0.83[ASN][1000 genomes]
rs10882922	0.80[ASN][1000 genomes]
rs10882926	0.88[CHB][hapmap];0.80[ASN][1000 genomes]
rs11189144	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11189154	0.84[ASN][1000 genomes]
rs11189156	0.92[ASN][1000 genomes]
rs11189157	0.92[ASN][1000 genomes]
rs11189159	0.82[CHB][hapmap];0.81[JPT][hapmap];0.92[ASN][1000 genomes]
rs11189163	0.92[ASN][1000 genomes]
rs11189165	0.89[CHB][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11189167	0.92[ASN][1000 genomes]
rs11189168	0.94[CHB][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11189172	0.88[CHB][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11189173	0.87[ASN][1000 genomes]
rs11189174	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11189175	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11189177	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11189178	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11189179	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11189180	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11189181	0.87[ASN][1000 genomes]
rs11189182	0.87[ASN][1000 genomes]
rs11189183	0.87[ASN][1000 genomes]
rs11189191	0.84[ASN][1000 genomes]
rs11189192	0.82[ASN][1000 genomes]
rs11189193	0.80[ASN][1000 genomes]
rs11189195	0.82[ASN][1000 genomes]
rs11189196	0.82[ASN][1000 genomes]
rs11189197	0.80[ASN][1000 genomes]
rs11189200	0.82[ASN][1000 genomes]
rs12218483	0.87[ASN][1000 genomes]
rs12258560	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12266723	0.81[ASN][1000 genomes]
rs12359257	0.83[CHB][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12412478	0.87[ASN][1000 genomes]
rs12415424	0.92[ASN][1000 genomes]
rs1537645	0.80[ASN][1000 genomes]
rs1537646	0.80[ASN][1000 genomes]
rs1547328	0.92[ASN][1000 genomes]
rs17112674	0.84[EUR][1000 genomes]
rs17112676	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17504745	0.92[ASN][1000 genomes]
rs1810983	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2275089	0.88[CHB][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2275090	0.88[CHB][hapmap];0.84[ASN][1000 genomes]
rs2275581	0.88[CHB][hapmap];0.84[JPT][hapmap];0.90[ASN][1000 genomes]
rs2275582	0.83[CHB][hapmap];0.84[JPT][hapmap];0.91[ASN][1000 genomes]
rs2297668	0.88[CHB][hapmap];0.80[ASN][1000 genomes]
rs2297988	0.94[CHB][hapmap];0.84[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2861878	0.92[ASN][1000 genomes]
rs3737194	0.84[EUR][1000 genomes]
rs3814553	0.88[CHB][hapmap];0.82[ASN][1000 genomes]
rs3818908	0.83[CHB][hapmap];0.88[ASN][1000 genomes]
rs4268448	0.92[ASN][1000 genomes]
rs4635018	0.88[CHB][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60237341	0.80[ASN][1000 genomes]
rs61861861	0.87[ASN][1000 genomes]
rs61861870	0.82[ASN][1000 genomes]
rs61863813	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61863815	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61863816	0.91[ASN][1000 genomes]
rs61863819	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6584126	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6584127	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7074511	0.86[CHB][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7074678	0.82[CHB][hapmap]
rs7078004	0.82[CHB][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7084654	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7088410	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7092350	0.88[CHB][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7092499	0.88[CHB][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7096801	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72838764	0.87[ASN][1000 genomes]
rs7895695	0.88[CHB][hapmap]
rs7896100	0.82[ASN][1000 genomes]
rs7905026	0.92[ASN][1000 genomes]
rs7909345	0.82[ASN][1000 genomes]
rs7917752	0.92[ASN][1000 genomes]
rs7918742	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7918948	0.88[CHB][hapmap];0.92[ASN][1000 genomes]
rs7921585	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7922512	0.82[ASN][1000 genomes]
rs7923385	0.85[EUR][1000 genomes]
rs7924254	0.91[ASN][1000 genomes]
rs869967	0.84[ASN][1000 genomes]
rs954149	0.94[CHB][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9787426	0.82[ASN][1000 genomes]
rs9787454	0.82[ASN][1000 genomes]
rs9887991	0.80[ASN][1000 genomes]
rs9887994	0.80[ASN][1000 genomes]
rs9888026	0.88[CHB][hapmap];0.80[ASN][1000 genomes]
rs9888116	0.80[ASN][1000 genomes]
rs9888117	0.88[CHB][hapmap];0.80[ASN][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:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10882900	RRP12	cis	Muscle Skeletal	GTEx
rs10882900	RRP12	cis	Heart Left Ventricle	GTEx

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99095200-99109400	Weak transcription	HSMMtube	muscle
2	chr10:99095200-99115200	Weak transcription	Gastric	stomach
3	chr10:99095400-99109400	Weak transcription	Liver	Liver
4	chr10:99095400-99115600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr10:99095400-99115600	Weak transcription	Left Ventricle	heart
6	chr10:99095400-99115600	Weak transcription	Right Ventricle	heart
7	chr10:99095600-99101800	Weak transcription	Pancreas	Pancrea
8	chr10:99097200-99104200	Weak transcription	K562	blood
9	chr10:99097400-99109600	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr10:99097400-99115200	Weak transcription	A549	lung
11	chr10:99097400-99116000	Weak transcription	Hela-S3	cervix
12	chr10:99097600-99109400	Weak transcription	Primary monocytes fromperipheralblood	blood
13	chr10:99097600-99109400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr10:99097600-99109600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr10:99097600-99115200	Weak transcription	NHEK	skin
16	chr10:99097600-99115800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr10:99098200-99101400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr10:99098200-99108800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr10:99098200-99116200	Weak transcription	Brain Angular Gyrus	brain
20	chr10:99098400-99101600	Weak transcription	Primary neutrophils fromperipheralblood	blood
21	chr10:99098400-99109200	Weak transcription	Monocytes-CD14+_RO01746	blood
22	chr10:99098400-99109400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr10:99098400-99115200	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr10:99098600-99101800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr10:99098600-99114600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr10:99098600-99115400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr10:99099200-99101800	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr10:99099200-99109600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr10:99099400-99101800	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr10:99099400-99113600	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr10:99099400-99115600	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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