Variant report

Variant	rs4877725
Chromosome Location	chr9:85603872-85603873
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs1008171	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs1010480	0.89[CEU][hapmap]
rs10115768	0.84[EUR][1000 genomes]
rs10116216	0.85[CEU][hapmap]
rs10116254	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs10121204	0.88[CEU][hapmap];0.80[EUR][1000 genomes]
rs10121376	0.87[EUR][1000 genomes]
rs10121395	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs10126033	0.82[EUR][1000 genomes]
rs10735559	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10746694	0.83[EUR][1000 genomes]
rs10780561	1.00[CEU][hapmap];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10780562	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10780563	0.89[CEU][hapmap]
rs10780564	0.91[EUR][1000 genomes]
rs10780565	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs10780567	0.89[CEU][hapmap]
rs10867928	0.89[CEU][hapmap]
rs10867929	0.89[CEU][hapmap]
rs10867930	0.89[CEU][hapmap]
rs1125915	0.93[CEU][hapmap]
rs13302349	0.82[EUR][1000 genomes]
rs1393562	0.89[CEU][hapmap]
rs1393563	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs1393564	0.82[CEU][hapmap];0.84[EUR][1000 genomes]
rs1393565	0.89[CEU][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1502682	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs1502683	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1502684	1.00[CEU][hapmap];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1502685	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs1546315	0.89[CEU][hapmap]
rs1546316	0.89[CEU][hapmap]
rs1546317	0.89[CEU][hapmap]
rs1580881	0.89[CEU][hapmap]
rs1976455	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs1995423	0.88[CEU][hapmap]
rs2062761	0.92[CEU][hapmap]
rs2279814	0.89[CEU][hapmap];0.86[EUR][1000 genomes]
rs4146960	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs4146961	0.89[CEU][hapmap]
rs4301515	0.89[CEU][hapmap];0.80[EUR][1000 genomes]
rs4348583	0.85[CEU][hapmap];0.83[EUR][1000 genomes]
rs4355855	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4385545	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4391505	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4460464	0.85[CEU][hapmap]
rs4623517	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4877244	0.89[CEU][hapmap];0.80[EUR][1000 genomes]
rs4877724	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4877726	0.89[CEU][hapmap]
rs6559693	0.87[EUR][1000 genomes]
rs6559694	0.89[CEU][hapmap]
rs6559695	0.96[CEU][hapmap]
rs7019227	0.89[CEU][hapmap]
rs7024864	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs7847666	0.88[CEU][hapmap];0.80[EUR][1000 genomes]
rs7849126	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7853052	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7854101	0.89[CEU][hapmap]
rs7862012	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7864688	0.99[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7866666	0.89[CEU][hapmap]
rs7872982	0.81[EUR][1000 genomes]
rs871512	0.88[CEU][hapmap]
rs952450	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs998119	0.85[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:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85592800-85608600	Weak transcription	Stomach Mucosa	stomach
2	chr9:85594600-85606000	Weak transcription	Fetal Intestine Large	intestine
3	chr9:85594800-85628200	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr9:85597200-85627000	Weak transcription	A549	lung
5	chr9:85597600-85608600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr9:85597600-85608600	Weak transcription	HMEC	breast
7	chr9:85600800-85604200	Strong transcription	Cortex derived primary cultured neurospheres	brain
8	chr9:85601800-85604400	Enhancers	Rectal Mucosa Donor 31	rectum
9	chr9:85602800-85604000	Enhancers	Ovary	ovary
10	chr9:85603000-85606400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr9:85603000-85606400	Weak transcription	Fetal Kidney	kidney
12	chr9:85603000-85608600	Weak transcription	Gastric	stomach
13	chr9:85603000-85615800	Weak transcription	Fetal Intestine Small	intestine
14	chr9:85603000-85628200	Weak transcription	Fetal Stomach	stomach
15	chr9:85603200-85621600	Weak transcription	Esophagus	oesophagus
16	chr9:85603200-85643800	Weak transcription	Duodenum Mucosa	Duodenum
17	chr9:85603400-85612400	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr9:85603600-85604200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr9:85603600-85607200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr9:85603800-85604000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
21	chr9:85603800-85604200	Enhancers	Fetal Lung	lung
22	chr9:85603800-85605800	Strong transcription	Pancreas	Pancrea
23	chr9:85603800-85613200	Weak transcription	Colonic Mucosa	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links