Variant report

Variant	rs16841924
Chromosome Location	chr1:165243506-165243507
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	chr1:165243074..165245527-chr1:165251469..165253702,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10494440	0.92[CEU][hapmap]
rs10494442	0.85[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.94[MEX][hapmap];0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs10918144	1.00[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs10918145	1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[JPT][hapmap];0.97[ASN][1000 genomes]
rs12135437	0.85[CEU][hapmap];0.85[CHB][hapmap];0.91[CHD][hapmap]
rs12404307	1.00[CHB][hapmap];0.87[CHD][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs12405561	0.85[CEU][hapmap];0.85[CHB][hapmap];0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12411054	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1343554	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17404691	1.00[CHB][hapmap];0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs1811714	0.85[CEU][hapmap];0.85[CHB][hapmap]
rs34458079	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4361970	0.85[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.83[JPT][hapmap];0.87[MEX][hapmap];0.84[ASN][1000 genomes]
rs56274812	0.97[ASN][1000 genomes]
rs56820548	0.84[ASN][1000 genomes]
rs59974691	0.84[ASN][1000 genomes]
rs6677100	0.82[ASN][1000 genomes]
rs7518895	1.00[ASN][1000 genomes]
rs7519089	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7528111	1.00[CHB][hapmap];0.91[CHD][hapmap];0.83[JPT][hapmap];0.87[ASN][1000 genomes]

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	nsv869712	chr1:164866810-165299085	Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16841924	CD247	cis	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:165235000-165245000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr1:165235200-165244600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr1:165242600-165244400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr1:165242600-165244400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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