Variant report

Variant	rs35909314
Chromosome Location	chr4:85498139-85498140
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1020278	0.84[CEU][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10446695	0.86[CEU][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10776519	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11097023	0.94[ASW][hapmap];1.00[CEU][hapmap];0.81[CHB][hapmap];0.87[CHD][hapmap];0.97[GIH][hapmap];0.88[JPT][hapmap];0.87[MEX][hapmap];0.86[MKK][hapmap];0.97[TSI][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11099651	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11099652	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11099653	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11725539	1.00[CEU][hapmap];0.85[CHB][hapmap];0.89[JPT][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11733870	0.90[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11929910	0.84[CEU][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12509774	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12648523	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13102661	0.94[GIH][hapmap]
rs1372971	0.94[GIH][hapmap]
rs1443074	0.94[GIH][hapmap]
rs2165786	0.83[MEX][hapmap]
rs2868914	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2868915	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2868916	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2868917	0.83[ASW][hapmap];0.81[CEU][hapmap];0.90[CHB][hapmap];0.97[CHD][hapmap];0.94[JPT][hapmap];0.83[MEX][hapmap];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2868919	0.84[CEU][hapmap];0.91[GIH][hapmap];0.84[TSI][hapmap]
rs35227341	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4449405	1.00[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];0.94[GIH][hapmap];0.94[JPT][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4533768	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6535544	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6829806	0.94[GIH][hapmap]
rs7657036	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7657224	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7659340	0.84[CEU][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7677285	0.88[CEU][hapmap];0.82[JPT][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7678115	0.83[EUR][1000 genomes]
rs7678268	0.81[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7699871	0.90[ASN][1000 genomes]
rs974130	0.80[CHB][hapmap]
rs9784491	0.94[GIH][hapmap]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs35909314	IBSP	cis	parietal	SCAN
rs35909314	NCRNA00247	cis	cerebellum	SCAN
rs35909314	NKX6-1	cis	parietal	SCAN

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:85489800-85503400	Weak transcription	Lung	lung
2	chr4:85490000-85500400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr4:85490600-85500200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr4:85490600-85500600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr4:85490600-85501200	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr4:85490800-85500200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr4:85491000-85500000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr4:85493600-85500000	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr4:85495400-85500000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr4:85495600-85500000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr4:85495600-85500400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr4:85495600-85503400	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr4:85495600-85503400	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr4:85495800-85500000	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr4:85495800-85500000	Weak transcription	HMEC	breast
16	chr4:85495800-85500200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr4:85495800-85500200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr4:85495800-85500200	Weak transcription	NHEK	skin
19	chr4:85495800-85502200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr4:85495800-85503400	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr4:85496000-85500200	Weak transcription	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links