Variant report

Variant	rs1544203
Chromosome Location	chr9:100042918-100042919
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10122063	0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.84[ASN][1000 genomes]
rs10125198	0.95[CHB][hapmap];0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs1037948	0.83[ASN][1000 genomes]
rs10435867	0.84[ASN][1000 genomes]
rs10435868	0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.82[ASN][1000 genomes]
rs10448274	0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.82[ASN][1000 genomes]
rs10759624	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs10817487	0.82[ASN][1000 genomes]
rs10981280	0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs10981288	0.93[ASW][hapmap];0.96[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.94[LWK][hapmap];0.90[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes]
rs10981296	0.83[CEU][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes]
rs10981329	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[EUR][1000 genomes]
rs10981438	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10981890	0.87[CHB][hapmap];0.95[JPT][hapmap];0.94[YRI][hapmap]
rs11581	0.91[JPT][hapmap]
rs11791310	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[EUR][1000 genomes]
rs11998999	0.83[EUR][1000 genomes]
rs12004930	0.85[EUR][1000 genomes]
rs12005128	0.86[EUR][1000 genomes]
rs12235305	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12235734	0.80[EUR][1000 genomes]
rs13297670	0.83[EUR][1000 genomes]
rs13298346	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[EUR][1000 genomes]
rs13299627	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13301357	0.90[EUR][1000 genomes]
rs13302699	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1903635	0.86[JPT][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1947717	0.86[ASW][hapmap];0.86[CHB][hapmap];0.81[CHD][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs2169456	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs2219664	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2242187	0.93[ASW][hapmap];0.95[CHB][hapmap];0.80[CHD][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs2279114	0.81[ASN][1000 genomes]
rs2306097	1.00[ASW][hapmap];0.95[CHB][hapmap];0.83[CHD][hapmap];0.95[JPT][hapmap];0.81[MKK][hapmap];1.00[YRI][hapmap];0.84[ASN][1000 genomes]
rs2493442	0.86[CHB][hapmap];0.82[JPT][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2493443	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2502644	0.86[CHB][hapmap];0.94[JPT][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2615143	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2615145	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2795365	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2795367	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2818238	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][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];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2818239	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2818243	0.93[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3214072	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34382632	0.84[EUR][1000 genomes]
rs34955252	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35609998	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3747489	0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs3747493	0.95[CHB][hapmap];0.80[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs3747496	1.00[ASW][hapmap];0.95[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs3802471	0.83[ASN][1000 genomes]
rs4237189	0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.80[ASN][1000 genomes]
rs4284138	0.88[EUR][1000 genomes]
rs4313271	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4366181	0.93[ASW][hapmap];0.95[CHB][hapmap];0.80[CHD][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs4523384	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4523385	0.81[ASW][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap]
rs4554595	0.85[ASN][1000 genomes]
rs4743072	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4743076	0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.84[ASN][1000 genomes]
rs4743077	0.93[ASW][hapmap];0.95[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.86[ASN][1000 genomes]
rs4743084	0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs55694850	0.83[EUR][1000 genomes]
rs6478095	1.00[ASW][hapmap];0.95[CHB][hapmap];0.83[CHD][hapmap];0.95[JPT][hapmap];0.81[MKK][hapmap];1.00[YRI][hapmap];0.84[ASN][1000 genomes]
rs6478131	0.81[ASN][1000 genomes]
rs7020393	0.86[JPT][hapmap]
rs7042707	0.86[JPT][hapmap]
rs713066	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72747776	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7470446	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs750674	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7856924	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7859665	0.81[JPT][hapmap]
rs7869959	0.80[EUR][1000 genomes]
rs9696167	0.82[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1544203	ANKRD18CP	cis	Thyroid	GTEx
rs1544203	VN1R51P	cis	Thyroid	GTEx
rs1544203	LOC57653	cis	parietal	SCAN

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100025800-100050200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:100035000-100059600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr9:100036800-100052200	Weak transcription	Stomach Mucosa	stomach
4	chr9:100037200-100050200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr9:100037400-100047000	Strong transcription	Fetal Muscle Trunk	muscle
6	chr9:100037800-100046600	Strong transcription	Stomach Smooth Muscle	stomach
7	chr9:100038200-100050600	Weak transcription	Esophagus	oesophagus
8	chr9:100038600-100043800	Weak transcription	Psoas Muscle	Psoas
9	chr9:100038600-100044000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr9:100038600-100044400	Strong transcription	Fetal Intestine Large	intestine
11	chr9:100038600-100044600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr9:100038600-100045800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr9:100038600-100046800	Strong transcription	Brain Anterior Caudate	brain
14	chr9:100038600-100047600	Weak transcription	HepG2	liver
15	chr9:100038800-100044800	Strong transcription	Primary B cells from peripheral blood	blood
16	chr9:100038800-100046400	Strong transcription	Ovary	ovary
17	chr9:100038800-100047200	Strong transcription	Liver	Liver
18	chr9:100038800-100050400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr9:100039000-100043400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr9:100039000-100044000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr9:100039000-100046400	Strong transcription	Fetal Muscle Leg	muscle
22	chr9:100039000-100047000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr9:100039000-100047000	Strong transcription	Skeletal Muscle Male	skeletal muscle
24	chr9:100039000-100050600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr9:100039000-100052800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr9:100039000-100053000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr9:100039000-100054200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr9:100039200-100052800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
29	chr9:100039200-100056400	Weak transcription	Small Intestine	intestine
30	chr9:100039400-100044000	Strong transcription	Brain Germinal Matrix	brain
31	chr9:100039400-100044200	Strong transcription	Primary T cells fromperipheralblood	blood
32	chr9:100039400-100044200	Strong transcription	Brain Hippocampus Middle	brain
33	chr9:100039400-100044400	Strong transcription	Monocytes-CD14+_RO01746	blood
34	chr9:100039400-100044600	Strong transcription	Primary T helper cells fromperipheralblood	blood
35	chr9:100039400-100044800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr9:100039400-100046400	Strong transcription	Left Ventricle	heart
37	chr9:100039400-100046600	Strong transcription	Duodenum Smooth Muscle	Duodenum
38	chr9:100039400-100046800	Strong transcription	Primary T cells from cord blood	blood
39	chr9:100039600-100043000	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr9:100039600-100043600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr9:100039600-100043800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr9:100039600-100044000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
43	chr9:100039600-100044200	Strong transcription	Colon Smooth Muscle	Colon
44	chr9:100039600-100046400	Strong transcription	Skeletal Muscle Female	skeletal muscle
45	chr9:100039600-100046600	Strong transcription	Primary hematopoietic stem cells	blood
46	chr9:100039600-100047200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
47	chr9:100039600-100047400	Strong transcription	Adipose Nuclei	Adipose
48	chr9:100039600-100055000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr9:100039600-100055600	Weak transcription	NH-A	brain
50	chr9:100039800-100043600	Strong transcription	Cortex derived primary cultured neurospheres	brain

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