Variant report

Variant	rs11581
Chromosome Location	chr9:100139161-100139162
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TDRD7-1	chr9:100137736-100140806	NONHSAT133501

Extended variants
information (count: 164 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:163)

rs_ID	r²[population]
rs10122063	0.86[JPT][hapmap]
rs10125198	0.81[JPT][hapmap]
rs1037948	0.81[ASN][1000 genomes]
rs10435868	0.86[JPT][hapmap]
rs10448274	0.86[JPT][hapmap]
rs1048451	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs10521029	1.00[CEU][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes]
rs10817384	0.91[EUR][1000 genomes]
rs10817491	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs10817504	0.88[CEU][hapmap];0.99[EUR][1000 genomes]
rs10981280	0.85[JPT][hapmap]
rs10981288	0.86[JPT][hapmap]
rs10981297	0.94[CEU][hapmap];0.96[TSI][hapmap]
rs10981329	0.86[JPT][hapmap]
rs10981367	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs10981434	0.82[EUR][1000 genomes]
rs10981444	0.93[EUR][1000 genomes]
rs10981460	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs10981688	0.94[EUR][1000 genomes]
rs10981784	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs10981800	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs10981801	1.00[EUR][1000 genomes]
rs10981890	0.86[JPT][hapmap]
rs1123379	1.00[EUR][1000 genomes]
rs11791310	0.86[JPT][hapmap]
rs12115447	0.95[EUR][1000 genomes]
rs12115448	0.93[EUR][1000 genomes]
rs12377538	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs12378350	1.00[CEU][hapmap];0.90[GIH][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes]
rs12550923	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs12551740	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs12551818	1.00[EUR][1000 genomes]
rs12552101	0.95[EUR][1000 genomes]
rs12552659	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs12553155	0.87[EUR][1000 genomes]
rs12553213	1.00[CEU][hapmap];0.90[GIH][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes]
rs12553259	0.93[EUR][1000 genomes]
rs12554363	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs12555277	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs13285567	0.92[CEU][hapmap];0.96[EUR][1000 genomes]
rs13286510	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs13287082	1.00[CEU][hapmap]
rs13289134	1.00[CEU][hapmap]
rs13289813	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs13292715	0.82[EUR][1000 genomes]
rs13298346	0.86[JPT][hapmap]
rs13299627	0.86[JPT][hapmap]
rs13300328	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs13301045	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs13301965	0.95[EUR][1000 genomes]
rs1531440	0.94[CEU][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs1544203	0.91[JPT][hapmap]
rs1564048	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs1564050	1.00[EUR][1000 genomes]
rs16919506	1.00[EUR][1000 genomes]
rs16919656	0.91[EUR][1000 genomes]
rs16919661	0.94[EUR][1000 genomes]
rs16919671	0.95[EUR][1000 genomes]
rs16919675	0.94[CEU][hapmap];0.95[EUR][1000 genomes]
rs1903635	0.81[CHB][hapmap];0.85[JPT][hapmap]
rs1947717	0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs1986462	0.94[CEU][hapmap]
rs2045729	1.00[CEU][hapmap];0.96[TSI][hapmap];0.95[EUR][1000 genomes]
rs2045730	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2045731	1.00[CEU][hapmap];0.90[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs2169456	0.86[JPT][hapmap]
rs2219664	0.86[JPT][hapmap]
rs2242187	0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs2279113	0.95[EUR][1000 genomes]
rs2279114	0.81[ASN][1000 genomes]
rs2290933	0.91[EUR][1000 genomes]
rs2306090	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs2306092	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs2306094	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2306097	0.86[JPT][hapmap]
rs2401384	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs2502644	0.82[JPT][hapmap]
rs2615143	0.86[JPT][hapmap]
rs2615145	0.86[JPT][hapmap]
rs2795367	0.83[JPT][hapmap]
rs2818238	0.86[JPT][hapmap]
rs2818243	0.86[JPT][hapmap]
rs3214072	0.91[JPT][hapmap]
rs34135027	0.88[EUR][1000 genomes]
rs34183765	0.95[EUR][1000 genomes]
rs34355647	0.95[EUR][1000 genomes]
rs34476799	0.82[EUR][1000 genomes]
rs34564795	0.95[EUR][1000 genomes]
rs34609282	1.00[EUR][1000 genomes]
rs34616426	0.95[EUR][1000 genomes]
rs34754033	0.86[EUR][1000 genomes]
rs34870571	0.95[EUR][1000 genomes]
rs34905303	1.00[EUR][1000 genomes]
rs34954690	0.99[EUR][1000 genomes]
rs35066943	1.00[EUR][1000 genomes]
rs35123877	0.91[EUR][1000 genomes]
rs35534888	1.00[EUR][1000 genomes]
rs35623544	1.00[EUR][1000 genomes]
rs35737497	0.95[EUR][1000 genomes]
rs35778461	0.98[EUR][1000 genomes]
rs35778718	1.00[EUR][1000 genomes]
rs35788892	1.00[EUR][1000 genomes]
rs3747489	0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs3747490	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3747491	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3747492	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3747493	0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs3747495	1.00[CEU][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs3747496	0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs3747498	1.00[CEU][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs3747499	1.00[CEU][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs3747504	1.00[CEU][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs3747506	0.94[CEU][hapmap];0.96[TSI][hapmap];0.88[EUR][1000 genomes]
rs3747507	0.91[EUR][1000 genomes]
rs3747510	1.00[EUR][1000 genomes]
rs3747511	0.95[EUR][1000 genomes]
rs3802471	0.81[ASN][1000 genomes]
rs3827484	1.00[EUR][1000 genomes]
rs3827485	0.93[EUR][1000 genomes]
rs3994560	1.00[CEU][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes]
rs4128763	1.00[CEU][hapmap]
rs41316960	0.88[EUR][1000 genomes]
rs4237189	0.86[JPT][hapmap]
rs4313271	0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs4366181	0.86[JPT][hapmap]
rs4554595	0.81[ASN][1000 genomes]
rs4742686	0.99[EUR][1000 genomes]
rs4742688	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs4743069	0.85[EUR][1000 genomes]
rs4743070	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs4743072	0.86[JPT][hapmap]
rs4743073	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs4743076	0.90[JPT][hapmap]
rs4743077	0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs4743082	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs4743083	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs4743084	0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs4743085	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs4743086	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs60681062	0.86[EUR][1000 genomes]
rs62557460	0.92[EUR][1000 genomes]
rs62557461	0.92[EUR][1000 genomes]
rs62557462	0.93[EUR][1000 genomes]
rs62557463	0.94[EUR][1000 genomes]
rs62559861	0.83[EUR][1000 genomes]
rs6478038	0.84[EUR][1000 genomes]
rs6478039	0.84[EUR][1000 genomes]
rs6478095	0.86[JPT][hapmap]
rs6478131	0.81[ASN][1000 genomes]
rs7020393	0.87[CHB][hapmap];0.95[JPT][hapmap]
rs7020530	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs7038496	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs7041222	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs7042707	0.87[CHB][hapmap];0.95[JPT][hapmap]
rs713066	0.84[JPT][hapmap]
rs73565808	0.90[EUR][1000 genomes]
rs750674	0.91[JPT][hapmap]
rs7859665	0.82[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs7872669	0.85[EUR][1000 genomes]
rs7874652	1.00[EUR][1000 genomes]
rs898869	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs898870	1.00[CEU][hapmap];0.92[GIH][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes]
rs9696058	0.99[EUR][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	nsv1036105	chr9:100131266-100171816	Weak transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100077000-100140800	Weak transcription	Fetal Brain Male	brain
2	chr9:100091600-100149200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr9:100104400-100142000	Weak transcription	Rectal Smooth Muscle	rectum
4	chr9:100106800-100143200	Weak transcription	Liver	Liver
5	chr9:100108000-100148200	Weak transcription	Esophagus	oesophagus
6	chr9:100115400-100144600	Weak transcription	Hela-S3	cervix
7	chr9:100115600-100139200	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr9:100117400-100145000	Weak transcription	Colon Smooth Muscle	Colon
9	chr9:100117600-100146400	Weak transcription	Small Intestine	intestine
10	chr9:100118200-100141600	Weak transcription	Primary T cells from cord blood	blood
11	chr9:100126600-100141600	Weak transcription	Primary B cells from peripheral blood	blood
12	chr9:100126600-100148400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr9:100127000-100148600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr9:100129000-100144400	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr9:100132000-100140000	Strong transcription	Brain Inferior Temporal Lobe	brain
16	chr9:100132000-100142600	Weak transcription	Fetal Kidney	kidney
17	chr9:100132000-100149000	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr9:100132200-100140200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr9:100132200-100141000	Strong transcription	Stomach Smooth Muscle	stomach
20	chr9:100132200-100141400	Strong transcription	Fetal Muscle Trunk	muscle
21	chr9:100132400-100140000	Strong transcription	Right Ventricle	heart
22	chr9:100132400-100140600	Weak transcription	Fetal Heart	heart
23	chr9:100132400-100141000	Strong transcription	Adipose Nuclei	Adipose
24	chr9:100132400-100146800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr9:100132600-100139400	Strong transcription	Fetal Muscle Leg	muscle
26	chr9:100132600-100144400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr9:100132600-100146800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr9:100132600-100148600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr9:100132600-100149400	Weak transcription	Primary hematopoietic stem cells	blood
30	chr9:100132600-100149400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr9:100132800-100139400	Weak transcription	Primary B cells from cord blood	blood
32	chr9:100132800-100141200	Strong transcription	Fetal Stomach	stomach
33	chr9:100133000-100141000	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr9:100133200-100139200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr9:100133400-100140400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
36	chr9:100133400-100148400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr9:100134000-100142200	Weak transcription	Primary T helper cells fromperipheralblood	blood
38	chr9:100134000-100144400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr9:100134600-100148600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr9:100135800-100140000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr9:100135800-100141200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
42	chr9:100136000-100141400	Strong transcription	Brain Hippocampus Middle	brain
43	chr9:100136000-100142400	Weak transcription	Primary T helper cells PMA-I stimulated	--
44	chr9:100136200-100139800	Strong transcription	Fetal Intestine Small	intestine
45	chr9:100136200-100140000	Strong transcription	Brain Cingulate Gyrus	brain
46	chr9:100136600-100142800	Weak transcription	Duodenum Mucosa	Duodenum
47	chr9:100136600-100148000	Weak transcription	Colonic Mucosa	Colon
48	chr9:100136800-100140200	Strong transcription	Fetal Intestine Large	intestine
49	chr9:100137000-100140000	Strong transcription	Spleen	Spleen
50	chr9:100137000-100141400	Strong transcription	Skeletal Muscle Male	skeletal muscle

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