Variant report

Variant	rs543736
Chromosome Location	chr8:104012949-104012950
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KB-1507C5.2.1-2	chr8:104011293-104014653	NONHSAT128145

Extended variants
information (count: 71 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10092124	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10099603	0.86[ASN][1000 genomes]
rs10955300	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11775864	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11777066	0.95[CEU][hapmap];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11779536	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11985451	0.95[CEU][hapmap];0.97[GIH][hapmap];0.87[MEX][hapmap];0.81[TSI][hapmap];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1512348	0.81[CHB][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs1566158	0.81[CHB][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs1849339	0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs1913025	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2388373	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2679733	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2679734	0.83[ASN][1000 genomes]
rs28693757	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2935582	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2935583	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2942225	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2945830	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3018946	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3018947	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4373497	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4400350	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4592000	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs492009	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs492108	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs494767	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs494941	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs498193	1.00[CEU][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.92[TSI][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs514502	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs515024	0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs522300	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs543674	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs548291	0.92[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs549251	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55743653	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55801214	0.83[ASN][1000 genomes]
rs56004705	0.85[ASN][1000 genomes]
rs563544	0.81[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs565338	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs571301	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs575524	0.86[JPT][hapmap]
rs577704	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs579324	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs582100	0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs595227	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs596631	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs600667	0.86[JPT][hapmap]
rs611839	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs612340	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs612363	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62525305	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62525310	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs626234	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs626253	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs627111	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs640049	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs640903	0.85[ASN][1000 genomes]
rs641814	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs641839	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs661012	0.83[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs688298	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs688308	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs693341	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7013362	0.81[JPT][hapmap]
rs7816151	0.85[ASN][1000 genomes]
rs7816814	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7834756	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7834916	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs868907	0.82[ASW][hapmap];1.00[CEU][hapmap];0.84[CHB][hapmap];0.90[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[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	esv33118	chr8:103358567-104068172	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	145 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs543736	OXR1	cis	parietal	SCAN

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:104007200-104014400	Weak transcription	Primary B cells from peripheral blood	blood
2	chr8:104007600-104014200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr8:104010600-104013200	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr8:104010600-104013600	Enhancers	H1 Cell Line	embryonic stem cell
5	chr8:104011200-104013400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr8:104011800-104013200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr8:104011800-104013200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr8:104011800-104013400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr8:104011800-104014200	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr8:104012200-104013000	Enhancers	Monocytes-CD14+_RO01746	blood
11	chr8:104012200-104013400	Enhancers	Liver	Liver
12	chr8:104012400-104013000	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
13	chr8:104012400-104013000	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
14	chr8:104012400-104013000	Enhancers	Primary monocytes fromperipheralblood	blood
15	chr8:104012400-104013000	Enhancers	Primary T cells from cord blood	blood
16	chr8:104012400-104013000	Enhancers	Primary hematopoietic stem cells short term culture	blood
17	chr8:104012400-104013000	Enhancers	HMEC	breast
18	chr8:104012400-104013000	Enhancers	NHEK	skin
19	chr8:104012400-104013200	Enhancers	Primary neutrophils fromperipheralblood	blood
20	chr8:104012400-104013400	Enhancers	H9 Cell Line	embryonic stem cell
21	chr8:104012600-104013400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr8:104012600-104013600	Enhancers	ES-I3 Cell Line	embryonic stem cell
23	chr8:104012800-104013000	Enhancers	Placenta	Placenta
24	chr8:104012800-104013400	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr8:104012800-104014000	Weak transcription	Primary B cells from cord blood	blood
26	chr8:104012800-104014200	Enhancers	HUES48 Cell Line	embryonic stem cell
27	chr8:104012800-104014600	Enhancers	iPS-20b Cell Line	embryonic stem cell

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