Variant report

Variant	rs2502644
Chromosome Location	chr9:100060956-100060957
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:100052153..100055011-chr9:100058924..100061369,2	MCF-7	breast:
2	chr9:100059268..100061469-chr9:100065674..100068294,2	MCF-7	breast:
3	chr9:100053928..100055918-chr9:100059325..100061044,2	K562	blood:
4	chr9:100060663..100062228-chr9:100065797..100068572,2	K562	blood:

Variant related genes	Relation type
ENSG00000255036	Chromatin interaction

Extended variants
information (count: 70 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10122063	0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs10125198	0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs1037948	0.83[ASN][1000 genomes]
rs10435867	0.86[ASN][1000 genomes]
rs10435868	0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs10448274	0.88[JPT][hapmap];0.80[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs10759624	0.86[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs10817487	0.84[ASN][1000 genomes]
rs10981280	0.81[CHB][hapmap];0.88[JPT][hapmap];0.80[EUR][1000 genomes]
rs10981288	0.86[CHB][hapmap];0.88[JPT][hapmap];0.81[EUR][1000 genomes]
rs10981296	0.81[EUR][1000 genomes]
rs10981329	0.86[CHB][hapmap];0.88[JPT][hapmap];0.87[EUR][1000 genomes]
rs10981438	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10981890	0.88[JPT][hapmap]
rs11581	0.82[JPT][hapmap]
rs11791310	0.86[CHB][hapmap];0.88[JPT][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	0.95[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	0.86[CHB][hapmap];0.88[JPT][hapmap];0.87[EUR][1000 genomes]
rs13299627	0.82[CHB][hapmap];0.88[JPT][hapmap];0.85[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	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1544203	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]
rs1903635	0.94[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1947717	0.87[JPT][hapmap];0.85[ASN][1000 genomes]
rs2169456	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs2219664	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]
rs2242187	0.80[CHB][hapmap];0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs2279114	0.81[ASN][1000 genomes]
rs2306097	0.80[CHB][hapmap];0.88[JPT][hapmap];0.80[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2493442	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]
rs2493443	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2615143	0.86[CHB][hapmap];0.88[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2615145	0.86[CHB][hapmap];0.88[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2795365	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2795367	0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2818238	0.86[CHB][hapmap];0.94[JPT][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2818239	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2818243	0.88[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3214072	0.82[CHB][hapmap];0.94[JPT][hapmap];0.97[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	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35609998	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3747489	0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs3747493	0.80[CHB][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs3747496	0.80[CHB][hapmap];0.94[JPT][hapmap];0.84[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs3802471	0.83[ASN][1000 genomes]
rs4237189	0.88[JPT][hapmap];0.84[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs4284138	0.87[EUR][1000 genomes]
rs4313271	0.80[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs4366181	0.80[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs4523384	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4554595	0.85[ASN][1000 genomes]
rs4743072	0.82[CHB][hapmap];0.88[JPT][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743076	0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs4743077	0.80[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs4743084	0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs55694850	0.82[EUR][1000 genomes]
rs6478095	0.80[CHB][hapmap];0.88[JPT][hapmap];0.82[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs6478131	0.81[ASN][1000 genomes]
rs713066	0.86[CHB][hapmap];0.85[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72747776	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7470446	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs750674	0.82[CHB][hapmap];0.94[JPT][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7856924	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7859665	0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs9696167	0.80[AFR][1000 genomes];0.85[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2502644	VN1R51P	cis	Thyroid	GTEx
rs2502644	ANKRD18CP	cis	Thyroid	GTEx

Chromatin state (count:27 , 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	chr9:100051200-100061000	Weak transcription	Colonic Mucosa	Colon
3	chr9:100053600-100061400	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr9:100053600-100062600	Weak transcription	Hela-S3	cervix
5	chr9:100054800-100069000	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr9:100054800-100069400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr9:100055000-100069400	Weak transcription	Rectal Smooth Muscle	rectum
8	chr9:100056200-100069200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr9:100056400-100062400	Weak transcription	NHDF-Ad	bronchial
10	chr9:100056400-100064000	Weak transcription	NHLF	lung
11	chr9:100057000-100075000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr9:100057400-100075400	Weak transcription	Dnd41	blood
13	chr9:100057600-100069000	Weak transcription	Brain Hippocampus Middle	brain
14	chr9:100057800-100069000	Weak transcription	Brain Cingulate Gyrus	brain
15	chr9:100058000-100061800	Weak transcription	Brain Substantia Nigra	brain
16	chr9:100058000-100063800	Weak transcription	Thymus	Thymus
17	chr9:100058000-100068600	Weak transcription	Brain Anterior Caudate	brain
18	chr9:100058000-100068800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr9:100058000-100069200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr9:100058200-100061000	Weak transcription	Left Ventricle	heart
21	chr9:100058200-100062800	Weak transcription	Spleen	Spleen
22	chr9:100058800-100062000	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr9:100060200-100064800	Weak transcription	Brain Angular Gyrus	brain
24	chr9:100060200-100068800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr9:100060200-100069200	Weak transcription	Brain Germinal Matrix	brain
26	chr9:100060200-100071600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr9:100060600-100069200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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