Variant report

Variant	rs10981460
Chromosome Location	chr9:100044134-100044135
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:99999112..100001027-chr9:100043234..100044992,2	K562	blood:

Variant related genes	Relation type
ENSG00000254483	Chromatin interaction
ENSG00000197816	Chromatin interaction
ENSG00000254876	Chromatin interaction
ENSG00000203279	Chromatin interaction

Extended variants
information (count: 124 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:124)

rs_ID	r²[population]
rs1048451	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10521029	1.00[CEU][hapmap]
rs10817337	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10817384	0.85[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10817491	0.94[CEU][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10817504	0.84[CEU][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10981297	0.94[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.89[YRI][hapmap]
rs10981367	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10981434	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10981444	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10981688	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10981701	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10981784	1.00[CEU][hapmap];0.94[YRI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10981800	0.94[CEU][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10981801	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10981931	0.85[JPT][hapmap]
rs1123379	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11581	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs12115447	0.91[EUR][1000 genomes]
rs12115448	0.90[EUR][1000 genomes]
rs12377538	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12378350	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12550923	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12551740	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12551818	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12552101	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12552659	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12553155	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12553213	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12553259	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12554363	0.94[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12555277	0.94[CEU][hapmap];0.85[YRI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13285567	0.87[CEU][hapmap];0.84[EUR][1000 genomes]
rs13286510	0.94[CEU][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13287082	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13289134	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13289813	0.94[CEU][hapmap];0.84[EUR][1000 genomes]
rs13292715	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13300328	0.94[CEU][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13301045	0.94[CEU][hapmap];0.83[YRI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13301965	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1531440	0.94[CEU][hapmap];0.84[CHB][hapmap];0.90[JPT][hapmap];0.94[YRI][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1542506	0.81[JPT][hapmap]
rs1564048	1.00[CEU][hapmap];0.94[YRI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1564050	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16919506	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16919656	0.87[EUR][1000 genomes]
rs16919661	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16919671	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16919675	0.89[CEU][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1986462	0.94[CEU][hapmap]
rs2045729	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2045730	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2045731	1.00[CEU][hapmap];0.85[YRI][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2279113	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2290933	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2306090	1.00[CEU][hapmap];0.85[YRI][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2306092	1.00[CEU][hapmap];0.85[YRI][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2306094	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2401384	1.00[CEU][hapmap];0.94[YRI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34135027	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34183765	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34355647	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34476799	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34564795	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34609282	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34616426	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34754033	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34870571	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34905303	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34954690	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35066943	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35123877	0.87[EUR][1000 genomes]
rs35534888	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35590659	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs35623544	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35737497	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35778461	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs35778718	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35788892	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3747490	0.94[CEU][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3747491	0.94[CEU][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3747492	0.94[CEU][hapmap];0.85[YRI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3747495	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3747498	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3747499	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3747504	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3747506	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3747507	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3747510	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3747511	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3827484	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3827485	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3994560	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4128763	1.00[CEU][hapmap]
rs41316960	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4742686	0.83[YRI][hapmap];0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4742688	0.94[CEU][hapmap];0.85[YRI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4742689	0.84[JPT][hapmap]
rs4743069	0.85[EUR][1000 genomes]
rs4743070	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4743073	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4743082	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4743083	1.00[CEU][hapmap];0.94[YRI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4743085	0.94[CEU][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4743086	0.94[CEU][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4743088	0.85[JPT][hapmap]
rs60681062	0.86[EUR][1000 genomes]
rs62556659	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62557460	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62557461	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62557462	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62557463	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6478038	0.81[EUR][1000 genomes]
rs6478039	0.81[EUR][1000 genomes]
rs7020530	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7038496	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7041222	0.94[CEU][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73565808	0.86[EUR][1000 genomes]
rs7872669	0.85[EUR][1000 genomes]
rs7874652	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs898869	1.00[CEU][hapmap];0.84[YRI][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs898870	1.00[CEU][hapmap];0.85[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9696058	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10981460	VN1R51P	cis	Thyroid	GTEx

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	chr9:100038600-100044400	Strong transcription	Fetal Intestine Large	intestine
9	chr9:100038600-100044600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr9:100038600-100045800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr9:100038600-100046800	Strong transcription	Brain Anterior Caudate	brain
12	chr9:100038600-100047600	Weak transcription	HepG2	liver
13	chr9:100038800-100044800	Strong transcription	Primary B cells from peripheral blood	blood
14	chr9:100038800-100046400	Strong transcription	Ovary	ovary
15	chr9:100038800-100047200	Strong transcription	Liver	Liver
16	chr9:100038800-100050400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr9:100039000-100046400	Strong transcription	Fetal Muscle Leg	muscle
18	chr9:100039000-100047000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr9:100039000-100047000	Strong transcription	Skeletal Muscle Male	skeletal muscle
20	chr9:100039000-100050600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr9:100039000-100052800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr9:100039000-100053000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr9:100039000-100054200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr9:100039200-100052800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
25	chr9:100039200-100056400	Weak transcription	Small Intestine	intestine
26	chr9:100039400-100044200	Strong transcription	Primary T cells fromperipheralblood	blood
27	chr9:100039400-100044200	Strong transcription	Brain Hippocampus Middle	brain
28	chr9:100039400-100044400	Strong transcription	Monocytes-CD14+_RO01746	blood
29	chr9:100039400-100044600	Strong transcription	Primary T helper cells fromperipheralblood	blood
30	chr9:100039400-100044800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr9:100039400-100046400	Strong transcription	Left Ventricle	heart
32	chr9:100039400-100046600	Strong transcription	Duodenum Smooth Muscle	Duodenum
33	chr9:100039400-100046800	Strong transcription	Primary T cells from cord blood	blood
34	chr9:100039600-100044200	Strong transcription	Colon Smooth Muscle	Colon
35	chr9:100039600-100046400	Strong transcription	Skeletal Muscle Female	skeletal muscle
36	chr9:100039600-100046600	Strong transcription	Primary hematopoietic stem cells	blood
37	chr9:100039600-100047200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
38	chr9:100039600-100047400	Strong transcription	Adipose Nuclei	Adipose
39	chr9:100039600-100055000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr9:100039600-100055600	Weak transcription	NH-A	brain
41	chr9:100039800-100044200	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr9:100039800-100044200	Strong transcription	Fetal Kidney	kidney
43	chr9:100039800-100044600	Strong transcription	Primary B cells from cord blood	blood
44	chr9:100039800-100045800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr9:100039800-100046200	Strong transcription	HUES6 Cell Line	embryonic stem cell
46	chr9:100039800-100046800	Strong transcription	Dnd41	blood
47	chr9:100039800-100047200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr9:100039800-100047200	Weak transcription	Pancreatic Islets	Pancreatic Islet
49	chr9:100039800-100048000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr9:100039800-100050400	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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