Variant report

Variant	rs9425752
Chromosome Location	chr1:173791617-173791618
allele	A/G
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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:173420516..173422769-chr1:173789956..173792492,2	K562	blood:
2	chr1:173443316..173450639-chr1:173791413..173797919,15	K562	blood:
3	chr1:173789792..173811494-chr1:173827886..173840273,103	K562	blood:
4	chr1:173791511..173794568-chr1:174127376..174130126,4	K562	blood:
5	chr1:173468219..173471114-chr1:173791143..173792703,2	K562	blood:
6	chr1:173443428..173450639-chr1:173791407..173797248,10	K562	blood:
7	chr1:173776652..173778542-chr1:173790947..173793244,2	K562	blood:
8	chr1:173789473..173804179-chr1:173828884..173842109,95	K562	blood:
9	chr1:173791090..173796578-chr1:173835400..173838797,13	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000208317	Chromatin interaction
ENSG00000152061	Chromatin interaction
ENSG00000252357	Chromatin interaction
ENSG00000270084	Chromatin interaction
ENSG00000227373	Chromatin interaction
ENSG00000117592	Chromatin interaction
ENSG00000185278	Chromatin interaction
ENSG00000234741	Chromatin interaction

Extended variants
information (count: 98 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs10081990	0.93[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10158663	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10399912	0.86[YRI][hapmap]
rs10798298	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10912677	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10912678	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10912680	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10912682	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10912684	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1115487	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11487392	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs12067571	0.89[AMR][1000 genomes]
rs12070556	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12073601	1.00[TSI][hapmap]
rs12080389	1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs12082206	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12083423	0.88[AMR][1000 genomes]
rs12085748	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12085894	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12094130	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12095090	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12096832	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12098124	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs1322771	1.00[ASW][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1322772	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13375555	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs1474907	1.00[ASW][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16846383	1.00[ASW][hapmap];0.98[LWK][hapmap];1.00[MKK][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846395	1.00[ASW][hapmap];0.82[YRI][hapmap]
rs16846398	1.00[ASW][hapmap];0.86[YRI][hapmap]
rs16846420	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2224657	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28578576	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4652283	0.90[MKK][hapmap]
rs4652298	0.90[MKK][hapmap]
rs4652328	0.83[MKK][hapmap]
rs56124923	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59845733	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6425256	1.00[ASW][hapmap];0.82[YRI][hapmap]
rs6425257	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6658217	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6663880	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6675762	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6686455	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6689764	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6691327	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6691922	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6692452	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6695782	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6698348	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6702485	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7518130	1.00[ASW][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7522788	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7534521	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7536773	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7544583	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs7550036	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7552840	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9282959	1.00[ASW][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9282960	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9286886	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9286887	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9286890	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9286894	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425413	0.82[YRI][hapmap]
rs9425414	1.00[ASW][hapmap];0.82[YRI][hapmap]
rs9425415	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9425418	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425419	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425420	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425421	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425422	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425423	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425424	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425425	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425426	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425431	0.90[MKK][hapmap]
rs9425433	0.85[MKK][hapmap]
rs9425734	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425736	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425738	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425740	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425741	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425742	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9425746	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9425747	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425750	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425751	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425758	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425759	1.00[ASW][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425761	1.00[ASW][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9425768	1.00[ASW][hapmap]
rs9425774	0.83[AMR][1000 genomes]
rs9442660	1.00[ASW][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9970488	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9970633	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012384	chr1:173614816-173974426	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	294 gene(s)	inside rSNPs	diseases
2	nsv831926	chr1:173702403-173894667	Weak transcription Strong transcription Enhancers 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 miRNA target site	291 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9425752	OR9I1	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:173736600-173792400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr1:173745000-173792400	Weak transcription	Psoas Muscle	Psoas
3	chr1:173749200-173792600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr1:173751400-173792200	Weak transcription	Fetal Kidney	kidney
5	chr1:173753200-173792200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr1:173753200-173792800	Weak transcription	Esophagus	oesophagus
7	chr1:173753400-173792600	Weak transcription	Spleen	Spleen
8	chr1:173753400-173792800	Weak transcription	Gastric	stomach
9	chr1:173753400-173792800	Weak transcription	Pancreas	Pancrea
10	chr1:173753600-173792600	Weak transcription	Brain Cingulate Gyrus	brain
11	chr1:173754200-173792200	Weak transcription	Fetal Brain Female	brain
12	chr1:173754400-173792600	Weak transcription	Brain Hippocampus Middle	brain
13	chr1:173755400-173792200	Weak transcription	HSMMtube	muscle
14	chr1:173755400-173792600	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr1:173756800-173791800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr1:173757400-173791800	Weak transcription	Brain Germinal Matrix	brain
17	chr1:173758800-173792200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr1:173761000-173792200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr1:173770000-173792000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr1:173772600-173792200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr1:173775400-173792400	Weak transcription	Brain Anterior Caudate	brain
22	chr1:173775600-173792200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr1:173775600-173792200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr1:173775800-173791800	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr1:173775800-173792000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr1:173775800-173792800	Weak transcription	Ovary	ovary
27	chr1:173776000-173792400	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr1:173776000-173792400	Weak transcription	Fetal Intestine Large	intestine
29	chr1:173776000-173792800	Weak transcription	Left Ventricle	heart
30	chr1:173776800-173792200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr1:173779200-173792200	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr1:173779400-173792000	Weak transcription	Primary T cells fromperipheralblood	blood
33	chr1:173779600-173792200	Weak transcription	Primary hematopoietic stem cells	blood
34	chr1:173779600-173792200	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr1:173779600-173792600	Weak transcription	Adipose Nuclei	Adipose
36	chr1:173779800-173792200	Weak transcription	Duodenum Mucosa	Duodenum
37	chr1:173780000-173792000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr1:173780000-173792200	Weak transcription	Primary T helper cells fromperipheralblood	blood
39	chr1:173780400-173792200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr1:173780400-173792200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr1:173780400-173792600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr1:173780600-173791800	Weak transcription	Fetal Muscle Leg	muscle
43	chr1:173780600-173792000	Weak transcription	Fetal Muscle Trunk	muscle
44	chr1:173780600-173792200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr1:173781200-173792200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr1:173781200-173792200	Weak transcription	Fetal Intestine Small	intestine
47	chr1:173786600-173792200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr1:173787400-173792600	Weak transcription	Right Atrium	heart
49	chr1:173787800-173792200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr1:173788000-173792200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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