Variant report

Variant	rs4877724
Chromosome Location	chr9:85596037-85596038
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	chr9:85594172..85597684-chr9:85598731..85602466,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FRMD3-5	chr9:85594505-85597351	NONHSAT132729

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1008171	0.91[EUR][1000 genomes]
rs10115768	0.83[EUR][1000 genomes]
rs10116254	0.82[EUR][1000 genomes]
rs10121376	0.86[EUR][1000 genomes]
rs10121395	0.81[EUR][1000 genomes]
rs10126033	0.81[EUR][1000 genomes]
rs10735559	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10746694	0.82[EUR][1000 genomes]
rs10780561	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10780562	0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10780564	0.90[EUR][1000 genomes]
rs10780565	0.82[EUR][1000 genomes]
rs13302349	0.81[EUR][1000 genomes]
rs1393563	0.83[EUR][1000 genomes]
rs1393564	0.83[EUR][1000 genomes]
rs1393565	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1502682	0.83[EUR][1000 genomes]
rs1502683	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1502684	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1502685	0.82[EUR][1000 genomes]
rs1976455	0.81[EUR][1000 genomes]
rs2279814	0.85[EUR][1000 genomes]
rs4146960	0.81[EUR][1000 genomes]
rs4348583	0.82[EUR][1000 genomes]
rs4355855	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4385545	0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4391505	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4623517	0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4877725	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6559693	0.86[EUR][1000 genomes]
rs7024864	0.82[EUR][1000 genomes]
rs7849126	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7853052	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7862012	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7864688	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7872982	0.81[EUR][1000 genomes]
rs952450	0.81[EUR][1000 genomes]
rs998119	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1050771	chr9:85416931-85643417	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	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
3	nsv6585	chr9:85566659-85611489	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85579800-85596200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr9:85591200-85602800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr9:85592200-85599200	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr9:85592400-85597000	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr9:85592400-85602400	Weak transcription	Esophagus	oesophagus
6	chr9:85592600-85601800	Weak transcription	Fetal Intestine Small	intestine
7	chr9:85592800-85608600	Weak transcription	Stomach Mucosa	stomach
8	chr9:85594400-85596600	Weak transcription	Pancreas	Pancrea
9	chr9:85594400-85602800	Weak transcription	Gastric	stomach
10	chr9:85594600-85606000	Weak transcription	Fetal Intestine Large	intestine
11	chr9:85594800-85600800	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr9:85594800-85628200	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr9:85596000-85596200	Enhancers	Aorta	Aorta
14	chr9:85596000-85596200	Enhancers	Fetal Stomach	stomach

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