Variant report

Variant	rs4233182
Chromosome Location	chr1:179602103-179602104
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	chr1:179601826..179604447-chr1:179622966..179625873,2	MCF-7	breast:
2	chr1:179601476..179603491-chr1:179604853..179608456,3	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10157829	0.83[GIH][hapmap];0.88[MEX][hapmap]
rs10494522	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.96[MEX][hapmap];0.87[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10913863	0.81[GIH][hapmap];0.92[MEX][hapmap]
rs11578278	0.84[MEX][hapmap]
rs11806102	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[YRI][hapmap]
rs12021675	0.80[AMR][1000 genomes]
rs12035247	0.83[GIH][hapmap];0.92[MEX][hapmap]
rs12039153	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12564117	1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.89[TSI][hapmap];0.84[YRI][hapmap]
rs4072098	0.83[GIH][hapmap]
rs4408116	0.85[GIH][hapmap];0.92[MEX][hapmap]
rs4474210	0.83[GIH][hapmap];0.91[MEX][hapmap];0.80[AMR][1000 genomes]
rs4483370	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4651045	0.83[GIH][hapmap];0.92[MEX][hapmap]
rs4652429	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap]
rs4652432	0.83[GIH][hapmap];0.92[MEX][hapmap]
rs4652433	0.83[GIH][hapmap];0.84[MEX][hapmap]
rs4652438	0.89[CEU][hapmap];0.85[GIH][hapmap];0.96[MEX][hapmap];0.84[TSI][hapmap]
rs6425580	0.83[GIH][hapmap];0.84[MEX][hapmap]
rs6425585	0.89[CEU][hapmap]
rs6659507	0.81[EUR][1000 genomes]
rs6672701	0.87[CHB][hapmap];0.87[CHD][hapmap];0.93[GIH][hapmap];0.85[LWK][hapmap];0.92[MEX][hapmap];0.89[TSI][hapmap];0.88[YRI][hapmap]
rs6689426	0.83[GIH][hapmap]
rs7513095	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7519436	0.83[GIH][hapmap];0.92[MEX][hapmap]
rs7540303	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7547484	0.83[GIH][hapmap];0.87[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013000	chr1:179589193-179628536	Enhancers Weak transcription Bivalent Enhancer	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs4233182	TNR	cis	parietal	SCAN
rs4233182	TDRD5	cis	cerebellum	SCAN
rs4233182	LHX4	cis	cerebellum	SCAN
rs4233182	TDRD5	cis	parietal	SCAN
rs4233182	TDRD5	cis	Esophagus Mucosa	GTEx

Chromatin state (count:0 , 50 per page) page:

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