Variant report

Variant	rs1324255
Chromosome Location	chr10:98314625-98314626
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:98312638-98314899	HepG2	liver:	n/a	n/a
2	POLR2A	chr10:98313123-98314683	A549	lung:	n/a	n/a
3	POLR2A	chr10:98312067-98315365	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:98312235..98313891-chr10:98314531..98316360,2	MCF-7	breast:
2	chr10:98308114..98311293-chr10:98313353..98316019,3	K562	blood:
3	chr10:98310062..98312320-chr10:98313478..98315731,2	MCF-7	breast:
4	chr10:98307199..98308742-chr10:98312705..98315323,2	K562	blood:

Variant related genes	Relation type
TM9SF3	TF binding region
ENSG00000077147	Chromatin interaction

Extended variants
information (count: 110 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10128106	0.94[ASN][1000 genomes]
rs1018604	0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs1018605	0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs1051450	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1063605	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10736114	0.84[JPT][hapmap]
rs10882809	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882811	0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs10882813	0.84[JPT][hapmap];0.94[ASN][1000 genomes]
rs10882815	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882817	0.94[ASN][1000 genomes]
rs10882821	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10882827	0.93[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes]
rs11188809	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188810	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188811	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188813	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188814	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188815	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188817	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188821	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188822	1.00[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]
rs11188825	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188827	0.91[ASN][1000 genomes]
rs11188831	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11188832	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11188833	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11188840	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11188842	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188847	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs11188848	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11188856	0.84[JPT][hapmap]
rs11188858	0.83[AMR][1000 genomes]
rs1132913	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1132914	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1156035	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1156036	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11814010	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12218847	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12219275	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12220047	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12221143	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12221262	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12413053	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12414612	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12415048	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12416646	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12761817	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12766248	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12775533	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12776810	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12779720	0.94[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1324256	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1324259	0.82[ASN][1000 genomes]
rs1408367	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17391547	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17482382	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2011190	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2025451	0.82[ASN][1000 genomes]
rs2031326	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2031329	0.94[ASN][1000 genomes]
rs33964467	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35779764	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs36098523	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs3689	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3748234	0.83[JPT][hapmap]
rs3748236	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs3748237	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3748238	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3789957	0.84[JPT][hapmap];0.94[ASN][1000 genomes]
rs3789958	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3818389	0.84[JPT][hapmap];0.94[ASN][1000 genomes]
rs4146727	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs4485036	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4534508	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4917742	0.84[JPT][hapmap]
rs4919029	0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs4919032	0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs4919037	0.82[ASN][1000 genomes]
rs4919040	0.82[CHB][hapmap]
rs58305369	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs61858194	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61858494	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61859300	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7069429	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7070686	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7071044	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7071224	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7071881	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7073017	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7073682	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7074516	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7082873	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7085389	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7086213	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7086240	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7087478	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7091606	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7097291	0.82[ASN][1000 genomes]
rs713251	0.94[CEU][hapmap];0.83[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7448	0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs7914154	0.84[JPT][hapmap]
rs7919739	0.84[JPT][hapmap];0.94[ASN][1000 genomes]
rs8578	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs912480	0.83[JPT][hapmap]
rs9633703	0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs9664749	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9664955	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98274200-98328600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:98274200-98328600	Weak transcription	Pancreas	Pancrea
3	chr10:98274200-98331200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr10:98276400-98319800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr10:98276400-98343200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr10:98277400-98315400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr10:98277800-98330400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr10:98278600-98318800	Weak transcription	Small Intestine	intestine
9	chr10:98286200-98323000	Weak transcription	Lung	lung
10	chr10:98286600-98338400	Weak transcription	Aorta	Aorta
11	chr10:98286600-98339400	Weak transcription	Brain Angular Gyrus	brain
12	chr10:98286600-98345600	Weak transcription	Esophagus	oesophagus
13	chr10:98289400-98318600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr10:98290000-98344200	Weak transcription	Spleen	Spleen
15	chr10:98292600-98344800	Weak transcription	Brain Germinal Matrix	brain
16	chr10:98293600-98326200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr10:98295400-98320800	Weak transcription	Fetal Heart	heart
18	chr10:98296200-98320600	Strong transcription	Duodenum Mucosa	Duodenum
19	chr10:98297000-98329200	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr10:98297200-98325000	Strong transcription	Placenta	Placenta
21	chr10:98297800-98324800	Strong transcription	Dnd41	blood
22	chr10:98298000-98315600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr10:98298200-98315400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr10:98298200-98322400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr10:98298400-98324600	Strong transcription	Primary B cells from cord blood	blood
26	chr10:98298600-98315600	Strong transcription	HUES48 Cell Line	embryonic stem cell
27	chr10:98298600-98324600	Strong transcription	Primary monocytes fromperipheralblood	blood
28	chr10:98298600-98325000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr10:98298600-98325200	Strong transcription	Primary B cells from peripheral blood	blood
30	chr10:98298800-98320000	Strong transcription	Rectal Mucosa Donor 31	rectum
31	chr10:98298800-98324200	Strong transcription	Fetal Thymus	thymus
32	chr10:98298800-98325600	Strong transcription	Primary T helper cells fromperipheralblood	blood
33	chr10:98299000-98325200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr10:98299400-98324200	Strong transcription	Primary T cells fromperipheralblood	blood
35	chr10:98300000-98315400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
36	chr10:98300800-98322400	Strong transcription	HepG2	liver
37	chr10:98301200-98322600	Strong transcription	Primary T helper cells PMA-I stimulated	--
38	chr10:98301400-98315000	Strong transcription	Hela-S3	cervix
39	chr10:98301600-98315000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
40	chr10:98304000-98318400	Weak transcription	Ovary	ovary
41	chr10:98304000-98318800	Weak transcription	Brain Cingulate Gyrus	brain
42	chr10:98304400-98325600	Weak transcription	NHLF	lung
43	chr10:98305400-98314800	Strong transcription	Primary hematopoietic stem cells	blood
44	chr10:98305400-98320400	Strong transcription	Fetal Intestine Large	intestine
45	chr10:98305400-98321600	Strong transcription	GM12878-XiMat	blood
46	chr10:98305400-98325000	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr10:98305600-98316200	Strong transcription	HUES64 Cell Line	embryonic stem cell
48	chr10:98305800-98315400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr10:98305800-98325000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr10:98307000-98316400	Weak transcription	HSMMtube	muscle

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