Variant report

Variant	rs4460464
Chromosome Location	chr9:85661899-85661900
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:85648451..85650186-chr9:85661316..85662880,2	MCF-7	breast:
2	chr9:85658412..85663531-chr9:85675948..85679642,4	MCF-7	breast:
3	chr9:85657659..85660023-chr9:85660042..85662289,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165105	Chromatin interaction

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs1008171	0.84[CEU][hapmap]
rs1010480	0.81[CEU][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10116216	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10116254	0.81[CEU][hapmap]
rs10121156	0.87[AMR][1000 genomes]
rs10121204	0.80[CEU][hapmap]
rs10121395	0.81[CEU][hapmap]
rs10735559	0.85[CEU][hapmap]
rs10780561	0.87[CEU][hapmap]
rs10780562	0.83[CEU][hapmap]
rs10780563	0.81[CEU][hapmap];0.88[MEX][hapmap]
rs10780565	0.81[CEU][hapmap]
rs10780567	0.81[CEU][hapmap];0.95[CHD][hapmap];0.91[JPT][hapmap];0.83[MEX][hapmap];0.91[AMR][1000 genomes]
rs10867925	0.82[AMR][1000 genomes]
rs10867926	0.80[AMR][1000 genomes]
rs10867928	0.81[CEU][hapmap]
rs10867929	0.81[CEU][hapmap];0.95[CHD][hapmap];0.91[JPT][hapmap];0.88[MEX][hapmap];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10867930	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs1393562	0.81[CEU][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1393563	0.85[CEU][hapmap]
rs1393565	0.81[CEU][hapmap]
rs1502682	0.81[CEU][hapmap]
rs1502683	0.85[CEU][hapmap];0.86[GIH][hapmap]
rs1502684	0.85[CEU][hapmap]
rs1502685	0.81[CEU][hapmap];0.81[AMR][1000 genomes]
rs1546315	0.81[CEU][hapmap]
rs1546316	0.81[CEU][hapmap];0.81[AMR][1000 genomes]
rs1546317	0.81[CEU][hapmap];0.81[AMR][1000 genomes]
rs1580881	0.81[CEU][hapmap]
rs1976455	0.81[CEU][hapmap];0.88[MEX][hapmap];0.82[AMR][1000 genomes]
rs1995423	0.96[CEU][hapmap];0.92[MEX][hapmap];0.85[TSI][hapmap];0.86[EUR][1000 genomes]
rs2062761	0.87[MEX][hapmap]
rs2279814	0.81[CEU][hapmap];0.84[MEX][hapmap]
rs4146960	0.80[CEU][hapmap];0.83[MEX][hapmap]
rs4146961	0.81[CEU][hapmap]
rs4301515	0.81[CEU][hapmap]
rs4348583	0.83[MEX][hapmap]
rs4355855	0.85[CEU][hapmap]
rs4385545	0.81[CEU][hapmap]
rs4391505	0.85[CEU][hapmap];0.86[GIH][hapmap]
rs4623517	0.81[CEU][hapmap]
rs4628323	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4877244	0.81[CEU][hapmap];0.82[AMR][1000 genomes]
rs4877725	0.85[CEU][hapmap]
rs4877726	0.96[CEU][hapmap];0.86[EUR][1000 genomes]
rs6559694	0.81[CEU][hapmap];0.88[MEX][hapmap]
rs6559695	0.88[CEU][hapmap];0.86[GIH][hapmap];0.91[MEX][hapmap]
rs7019227	0.81[CEU][hapmap];0.83[MEX][hapmap]
rs7024864	0.81[CEU][hapmap]
rs7029133	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7043325	0.82[EUR][1000 genomes]
rs7847666	0.81[CEU][hapmap]
rs7854101	0.81[CEU][hapmap];0.87[MEX][hapmap]
rs7866666	0.81[CEU][hapmap];0.88[MEX][hapmap]
rs871512	0.96[CEU][hapmap];0.92[MEX][hapmap];0.83[TSI][hapmap];0.84[EUR][1000 genomes]
rs952450	0.81[CEU][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	nsv893511	chr9:85495968-85833127	Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85644800-85670600	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr9:85645600-85662800	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr9:85655200-85671400	Weak transcription	Fetal Intestine Small	intestine
4	chr9:85656800-85662800	Weak transcription	Pancreas	Pancrea
5	chr9:85657000-85662400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr9:85657200-85662400	Weak transcription	Hela-S3	cervix
7	chr9:85657400-85662600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr9:85660400-85664400	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr9:85660800-85663000	Weak transcription	Stomach Mucosa	stomach
10	chr9:85661400-85663800	Enhancers	A549	lung

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