Variant report

Variant	rs2493442
Chromosome Location	chr9:100063038-100063039
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10122063	0.84[ASN][1000 genomes]
rs10125198	0.82[JPT][hapmap];0.83[ASN][1000 genomes]
rs1037948	0.84[ASN][1000 genomes]
rs10435867	0.84[ASN][1000 genomes]
rs10435868	0.83[ASN][1000 genomes]
rs10448274	0.83[ASN][1000 genomes]
rs10759624	0.81[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10817487	0.82[ASN][1000 genomes]
rs10981280	0.86[CHB][hapmap];0.80[EUR][1000 genomes]
rs10981288	0.91[CHB][hapmap];0.81[EUR][1000 genomes]
rs10981296	0.81[EUR][1000 genomes]
rs10981329	0.91[CHB][hapmap];0.87[EUR][1000 genomes]
rs10981438	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11791310	0.91[CHB][hapmap];0.86[EUR][1000 genomes]
rs11998999	0.82[EUR][1000 genomes]
rs12004930	0.84[EUR][1000 genomes]
rs12005128	0.85[EUR][1000 genomes]
rs12235305	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13297670	0.82[EUR][1000 genomes]
rs13298346	0.91[CHB][hapmap];0.87[EUR][1000 genomes]
rs13299627	0.87[CHB][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13301357	0.89[EUR][1000 genomes]
rs13302699	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1544203	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]
rs1903635	0.82[CHB][hapmap];0.90[JPT][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1947717	0.85[ASN][1000 genomes]
rs2169456	0.81[CHB][hapmap]
rs2219664	0.82[CHB][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2242187	0.81[CHB][hapmap];0.82[ASN][1000 genomes]
rs2279114	0.82[ASN][1000 genomes]
rs2306097	0.81[CHB][hapmap];0.84[ASN][1000 genomes]
rs2493443	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2502644	0.95[CHB][hapmap];0.94[JPT][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2615143	0.86[CHB][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2615145	0.86[CHB][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2795365	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2795367	0.81[CHB][hapmap];0.89[JPT][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2818238	0.86[CHB][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2818239	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2818243	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3214072	0.82[CHB][hapmap];0.82[JPT][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34382632	0.83[EUR][1000 genomes]
rs34955252	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35609998	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3747489	0.82[ASN][1000 genomes]
rs3747493	0.81[CHB][hapmap];0.82[JPT][hapmap];0.83[ASN][1000 genomes]
rs3747496	0.81[CHB][hapmap];0.82[JPT][hapmap];0.86[ASN][1000 genomes]
rs3802471	0.84[ASN][1000 genomes]
rs4237189	0.81[ASN][1000 genomes]
rs4284138	0.87[EUR][1000 genomes]
rs4313271	0.81[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs4366181	0.81[CHB][hapmap];0.81[ASN][1000 genomes]
rs4523384	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4554595	0.85[ASN][1000 genomes]
rs4743072	0.82[CHB][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4743076	0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs4743077	0.81[CHB][hapmap];0.82[JPT][hapmap];0.86[ASN][1000 genomes]
rs4743084	0.82[ASN][1000 genomes]
rs55694850	0.82[EUR][1000 genomes]
rs6478095	0.81[CHB][hapmap];0.85[ASN][1000 genomes]
rs6478131	0.82[ASN][1000 genomes]
rs713066	0.86[CHB][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72747776	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7470446	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs750674	0.82[CHB][hapmap];0.82[JPT][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7856924	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7859665	0.86[JPT][hapmap]
rs9696167	0.83[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2493442	ANKRD18CP	cis	Thyroid	GTEx
rs2493442	VN1R51P	cis	Thyroid	GTEx

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100046600-100069000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr9:100054800-100069000	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr9:100054800-100069400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr9:100055000-100069400	Weak transcription	Rectal Smooth Muscle	rectum
5	chr9:100056200-100069200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr9:100056400-100064000	Weak transcription	NHLF	lung
7	chr9:100057000-100075000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr9:100057400-100075400	Weak transcription	Dnd41	blood
9	chr9:100057600-100069000	Weak transcription	Brain Hippocampus Middle	brain
10	chr9:100057800-100069000	Weak transcription	Brain Cingulate Gyrus	brain
11	chr9:100058000-100063800	Weak transcription	Thymus	Thymus
12	chr9:100058000-100068600	Weak transcription	Brain Anterior Caudate	brain
13	chr9:100058000-100068800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr9:100058000-100069200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr9:100060200-100064800	Weak transcription	Brain Angular Gyrus	brain
16	chr9:100060200-100068800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr9:100060200-100069200	Weak transcription	Brain Germinal Matrix	brain
18	chr9:100060200-100071600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr9:100060600-100069200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr9:100062800-100063400	ZNF genes & repeats	GM12878-XiMat	blood

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