Variant report

Variant	rs2219664
Chromosome Location	chr9:100066735-100066736
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA3	chr9:100066583-100066768	SH-SY5Y	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr9:100066231..100068104-chr9:100070294..100072563,2	K562	blood:
2	chr9:100059268..100061469-chr9:100065674..100068294,2	MCF-7	breast:
3	chr9:100060663..100062228-chr9:100065797..100068572,2	K562	blood:

Variant related genes	Relation type
CCDC180	TF binding region

Extended variants
information (count: 73 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10122063	0.96[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[ASN][1000 genomes]
rs10125198	0.96[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs1037948	0.83[ASN][1000 genomes]
rs10435867	0.86[ASN][1000 genomes]
rs10435868	0.96[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10448274	0.96[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs10759624	0.88[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs10817487	0.84[ASN][1000 genomes]
rs10981280	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[EUR][1000 genomes]
rs10981288	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs10981296	0.89[YRI][hapmap];0.81[EUR][1000 genomes]
rs10981329	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[EUR][1000 genomes]
rs10981438	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10981890	0.87[CHB][hapmap];0.91[JPT][hapmap];0.95[YRI][hapmap]
rs11581	0.86[JPT][hapmap]
rs11791310	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][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	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13297670	0.82[EUR][1000 genomes]
rs13298346	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[EUR][1000 genomes]
rs13299627	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13301357	0.89[EUR][1000 genomes]
rs13302699	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1544203	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]
rs1903635	0.81[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1947717	0.86[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs2169456	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2242187	0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2279114	0.80[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs2306097	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2493442	0.82[CHB][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2493443	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2502644	0.82[CHB][hapmap];0.88[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2615143	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2615145	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2795365	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2795367	0.96[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2818238	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2818239	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2818243	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3214072	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.99[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	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35609998	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3747489	0.96[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs3747493	0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs3747496	0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs3802471	0.83[ASN][1000 genomes]
rs4237189	0.96[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs4284138	0.87[EUR][1000 genomes]
rs4313271	0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs4366181	0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs4523384	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4523385	0.87[CHB][hapmap];0.91[JPT][hapmap]
rs4554595	0.85[ASN][1000 genomes]
rs4743072	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743076	0.96[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap];0.84[ASN][1000 genomes]
rs4743077	0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[YRI][hapmap];0.85[ASN][1000 genomes]
rs4743084	0.96[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs55694850	0.82[EUR][1000 genomes]
rs6478095	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs6478131	0.80[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs7020393	0.91[JPT][hapmap]
rs7042707	0.91[JPT][hapmap]
rs713066	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72747776	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7470446	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs750674	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7856924	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7859665	0.82[ASN][1000 genomes]
rs9696167	0.82[AFR][1000 genomes];0.85[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2219664	ANKRD18CP	cis	Thyroid	GTEx
rs2219664	VN1R51P	cis	Thyroid	GTEx

Chromatin state (count:17 , 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	chr9:100057000-100075000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr9:100057400-100075400	Weak transcription	Dnd41	blood
8	chr9:100057600-100069000	Weak transcription	Brain Hippocampus Middle	brain
9	chr9:100057800-100069000	Weak transcription	Brain Cingulate Gyrus	brain
10	chr9:100058000-100068600	Weak transcription	Brain Anterior Caudate	brain
11	chr9:100058000-100068800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr9:100058000-100069200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr9:100060200-100068800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr9:100060200-100069200	Weak transcription	Brain Germinal Matrix	brain
15	chr9:100060200-100071600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr9:100060600-100069200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr9:100066400-100066800	Weak transcription	Pancreatic Islets	Pancreatic Islet

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