Variant report

Variant	rs2576235
Chromosome Location	chr1:216986967-216986968
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1030846	0.92[CEU][hapmap];0.88[CHD][hapmap];0.88[MEX][hapmap];0.92[TSI][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1126022	0.91[ASN][1000 genomes]
rs12745662	0.85[CEU][hapmap]
rs1339337	0.92[CEU][hapmap];0.83[MEX][hapmap];0.92[TSI][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1339338	0.92[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1339348	0.96[CEU][hapmap];0.82[CHB][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1339356	0.96[CEU][hapmap];0.88[CHD][hapmap];0.88[MEX][hapmap];0.92[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1344873	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1538526	0.84[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];0.83[AFR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17043767	0.82[ASW][hapmap]
rs17044322	1.00[YRI][hapmap]
rs1832532	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2032028	0.96[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];0.90[GIH][hapmap];0.94[JPT][hapmap];0.88[MEX][hapmap];0.92[TSI][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2118151	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2576231	0.84[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2576234	0.96[CEU][hapmap];0.83[MEX][hapmap];0.92[TSI][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2576236	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2576238	0.84[ASW][hapmap];0.81[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];0.94[JPT][hapmap];0.81[MEX][hapmap];0.90[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2789716	0.92[CEU][hapmap];0.88[CHD][hapmap];0.88[MEX][hapmap];0.92[TSI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2789720	0.83[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2813671	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2813674	0.95[CEU][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4575149	0.83[CEU][hapmap]
rs6604647	0.96[CEU][hapmap];0.86[CHD][hapmap];0.88[MEX][hapmap];0.92[TSI][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7512365	0.83[CEU][hapmap]
rs7512735	1.00[YRI][hapmap]
rs7554036	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[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	esv2762163	chr1:216982140-217015625	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:216979800-216988800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr1:216979800-216989000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr1:216980200-216987400	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr1:216980400-216988000	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr1:216983200-216988600	Weak transcription	Right Atrium	heart
6	chr1:216983200-216989200	Weak transcription	Gastric	stomach
7	chr1:216983600-216988600	Weak transcription	Left Ventricle	heart
8	chr1:216983600-216988800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr1:216985000-216987600	Weak transcription	Fetal Kidney	kidney
10	chr1:216985000-216988600	Enhancers	Fetal Heart	heart
11	chr1:216985200-216988400	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr1:216985400-216988200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr1:216985400-216988400	Weak transcription	Fetal Intestine Small	intestine
14	chr1:216985400-216989000	Weak transcription	Duodenum Mucosa	Duodenum
15	chr1:216985600-216988400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr1:216985800-216989000	Weak transcription	Fetal Intestine Large	intestine
17	chr1:216986000-216987800	Enhancers	HSMMtube	muscle
18	chr1:216986200-216987600	Enhancers	Psoas Muscle	Psoas
19	chr1:216986400-216987200	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr1:216986400-216988600	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr1:216986400-216989600	Enhancers	Fetal Muscle Leg	muscle
22	chr1:216986600-216987400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr1:216986600-216987800	Weak transcription	Fetal Lung	lung
24	chr1:216986600-216988400	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr1:216986600-216988800	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr1:216986600-216988800	Weak transcription	Brain Angular Gyrus	brain
27	chr1:216986600-216988800	Weak transcription	HSMM	muscle
28	chr1:216986800-216988400	Weak transcription	Brain Anterior Caudate	brain
29	chr1:216986800-216988400	Weak transcription	Brain Substantia Nigra	brain
30	chr1:216986800-216988600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links