Variant report

Variant	rs1871626
Chromosome Location	chr10:1166400-1166401
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:1154681..1157651-chr10:1165261..1167204,2	MCF-7	breast:
2	chr10:1146970..1148515-chr10:1164276..1166796,2	K562	blood:
3	chr10:1153340..1156463-chr10:1165823..1169651,3	K562	blood:

Extended variants
information (count: 41 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10159718	0.95[GIH][hapmap];0.81[JPT][hapmap];0.82[TSI][hapmap]
rs10736941	0.82[EUR][1000 genomes]
rs10751791	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1079388	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10903362	0.81[JPT][hapmap]
rs10903366	0.80[JPT][hapmap]
rs10903370	0.94[ASW][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.94[LWK][hapmap];0.92[MEX][hapmap];0.91[MKK][hapmap];0.88[TSI][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10903371	0.96[CEU][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11250256	0.82[JPT][hapmap]
rs11250260	0.81[JPT][hapmap]
rs12768746	0.80[JPT][hapmap]
rs12784270	0.81[JPT][hapmap]
rs2101050	0.81[JPT][hapmap]
rs3793774	0.81[JPT][hapmap]
rs4519019	0.95[GIH][hapmap];0.86[JPT][hapmap];0.85[TSI][hapmap]
rs4880765	1.00[GIH][hapmap];0.95[JPT][hapmap];0.88[TSI][hapmap];0.88[YRI][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4880766	0.95[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs5014941	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7074721	0.95[GIH][hapmap];0.81[JPT][hapmap];0.85[TSI][hapmap]
rs7087381	0.95[GIH][hapmap];0.81[JPT][hapmap];0.85[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv540386	chr10:224406-1197416	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv530116	chr10:776548-1401075	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	nsv1052540	chr10:887562-1300134	Strong transcription Weak transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS 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	34 gene(s)	inside rSNPs	diseases
4	nsv540407	chr10:887562-1300134	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv533861	chr10:945438-1382068	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer 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	34 gene(s)	inside rSNPs	diseases
6	nsv530117	chr10:945438-1729634	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
7	nsv540408	chr10:955835-1260680	Enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
8	nsv817532	chr10:964660-1885945	Bivalent/Poised TSS Enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
9	nsv1050577	chr10:986723-1277854	Weak transcription Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
10	nsv540409	chr10:986723-1277854	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
11	nsv949405	chr10:1010464-1376105	Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer 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	30 gene(s)	inside rSNPs	diseases
12	nsv894722	chr10:1058837-1274538	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
13	nsv1046220	chr10:1064024-1188998	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
14	nsv894723	chr10:1073684-1259485	Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer 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 miRNA target site	24 gene(s)	inside rSNPs	diseases
15	nsv894725	chr10:1110464-1421516	Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Enhancers Active TSS Flanking Active TSS 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	8 gene(s)	inside rSNPs	diseases
16	nsv1054432	chr10:1115626-1230431	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
17	nsv1041498	chr10:1117200-1760190	Genic enhancers Strong transcription Weak transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
18	nsv894726	chr10:1151620-1216861	Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
19	nsv1052682	chr10:1162925-1675641	Bivalent/Poised TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
20	nsv466699	chr10:1166400-1351088	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
21	nsv549768	chr10:1166400-1351088	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs1871626	IDI2	cis	brain	seeQTL
rs1871626	FLJ21128	trans	multi-tissue	Pritchard
rs1871626	ADARB2	cis	parietal	SCAN
rs1871626	PTPRCAP	trans	brain	seeQTL

Chromatin state (count:134 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:1117800-1168600	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr10:1118000-1168400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
3	chr10:1118000-1173800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr10:1122200-1168400	Strong transcription	Primary monocytes fromperipheralblood	blood
5	chr10:1122600-1168800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr10:1123000-1168600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr10:1123200-1178400	Strong transcription	Liver	Liver
8	chr10:1123400-1177800	Strong transcription	Primary B cells from peripheral blood	blood
9	chr10:1124200-1178000	Strong transcription	Primary B cells from cord blood	blood
10	chr10:1127800-1179000	Strong transcription	Fetal Stomach	stomach
11	chr10:1129400-1179000	Strong transcription	Primary neutrophils fromperipheralblood	blood
12	chr10:1138600-1178600	Strong transcription	Adipose Nuclei	Adipose
13	chr10:1144800-1232600	Weak transcription	Right Atrium	heart
14	chr10:1146800-1167800	Weak transcription	Fetal Heart	heart
15	chr10:1149200-1173200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr10:1149600-1173600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr10:1153200-1175000	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr10:1154000-1177200	Weak transcription	Stomach Mucosa	stomach
19	chr10:1156200-1168600	Strong transcription	Aorta	Aorta
20	chr10:1156400-1177400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr10:1156600-1169200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr10:1156600-1169200	Strong transcription	GM12878-XiMat	blood
23	chr10:1156600-1171800	Strong transcription	Osteobl	bone
24	chr10:1156600-1179000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr10:1156800-1168400	Strong transcription	Dnd41	blood
26	chr10:1156800-1170000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr10:1156800-1177800	Strong transcription	Spleen	Spleen
28	chr10:1156800-1178800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr10:1156800-1179400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
30	chr10:1157000-1171800	Strong transcription	NHEK	skin
31	chr10:1157000-1172600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr10:1157000-1177000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
33	chr10:1157000-1177600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr10:1157000-1178600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr10:1157000-1178800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr10:1157400-1168400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr10:1157400-1177800	Strong transcription	Duodenum Smooth Muscle	Duodenum
38	chr10:1157400-1177800	Strong transcription	Stomach Smooth Muscle	stomach
39	chr10:1157600-1169200	Weak transcription	K562	blood
40	chr10:1157800-1168800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr10:1157800-1178200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr10:1158000-1178000	Strong transcription	Lung	lung
43	chr10:1158200-1166400	Strong transcription	Muscle Satellite Cultured Cells	--
44	chr10:1158200-1171800	Strong transcription	Fetal Lung	lung
45	chr10:1158400-1169200	Strong transcription	HMEC	breast
46	chr10:1158400-1178200	Strong transcription	Placenta	Placenta
47	chr10:1159000-1174600	Weak transcription	Psoas Muscle	Psoas
48	chr10:1159000-1176800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
49	chr10:1159200-1173200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr10:1159400-1171400	Strong transcription	Esophagus	oesophagus

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