Variant report

Variant	rs9877416
Chromosome Location	chr3:151199905-151199906
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:151198937..151201376-chr3:151218846..151221278,2	K562	blood:
2	chr3:151194512..151197390-chr3:151199277..151201017,2	K562	blood:
3	chr3:151194378..151197390-chr3:151198956..151201017,3	K562	blood:

Extended variants
information (count: 43 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs11920861	0.83[ASN][1000 genomes]
rs12485986	0.85[CEU][hapmap];0.80[EUR][1000 genomes]
rs4234323	0.83[ASN][1000 genomes]
rs4234324	0.83[ASN][1000 genomes]
rs4234326	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4234327	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4256104	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4266168	0.80[EUR][1000 genomes]
rs4273348	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4339091	0.80[EUR][1000 genomes]
rs4383490	0.85[ASN][1000 genomes]
rs4402912	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4541381	0.85[CEU][hapmap]
rs4550807	0.80[EUR][1000 genomes]
rs4583622	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4596123	0.85[CEU][hapmap]
rs4679835	0.85[CEU][hapmap];0.85[EUR][1000 genomes]
rs4679847	0.80[EUR][1000 genomes]
rs4679848	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4680484	0.80[EUR][1000 genomes]
rs4680487	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6440750	0.81[AMR][1000 genomes]
rs6768853	0.83[ASN][1000 genomes]
rs6772583	0.83[ASN][1000 genomes]
rs6786811	0.83[ASN][1000 genomes]
rs6792286	0.83[ASN][1000 genomes]
rs7615314	0.85[CEU][hapmap];0.80[EUR][1000 genomes]
rs7617483	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7623843	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7637276	0.80[EUR][1000 genomes]
rs7637567	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9811627	0.80[EUR][1000 genomes]
rs9816549	0.80[EUR][1000 genomes]
rs9821181	0.80[EUR][1000 genomes]
rs9841068	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9882955	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829757	chr3:151044880-151226442	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1000355	chr3:151108859-151243835	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv995048	chr3:151114074-151560019	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv877649	chr3:151147968-151236562	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv877650	chr3:151174010-151314449	Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
6	nsv963536	chr3:151191085-151212472	Weak transcription Enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv819466	chr3:151196634-151219966	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9877416	CLRN1	cis	parietal	SCAN
rs9877416	GPR149	cis	cerebellum	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:151196400-151209000	Weak transcription	Ovary	ovary
2	chr3:151199000-151202200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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