Variant report

Variant	rs11730080
Chromosome Location	chr4:106521859-106521860
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10023798	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10032269	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10516520	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10516521	0.82[ASN][1000 genomes]
rs11721732	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11721842	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11730082	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11730825	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11735330	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1447097	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17035915	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17035936	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17035939	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17035951	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17259503	1.00[ASN][1000 genomes]
rs17259931	1.00[ASN][1000 genomes]
rs17260120	1.00[ASN][1000 genomes]
rs17260183	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17261094	0.82[ASN][1000 genomes]
rs17325276	1.00[ASN][1000 genomes]
rs17326919	0.82[ASN][1000 genomes]
rs17327234	0.82[ASN][1000 genomes]
rs2305212	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28402213	0.89[EUR][1000 genomes]
rs28536076	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3796920	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3796923	0.82[ASN][1000 genomes]
rs4324546	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4324547	1.00[ASN][1000 genomes]
rs4326019	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4407508	1.00[ASN][1000 genomes]
rs4588463	1.00[ASN][1000 genomes]
rs58412572	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59936741	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6833345	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72669979	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72669984	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73837046	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7666969	1.00[ASN][1000 genomes]
rs7681991	1.00[ASN][1000 genomes]
rs7687176	1.00[ASN][1000 genomes]
rs7698817	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs961472	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs961473	0.95[AMR][1000 genomes];0.91[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	nsv879699	chr4:106212562-106698892	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106509000-106540400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr4:106516000-106553000	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr4:106516400-106545600	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr4:106518200-106524400	Weak transcription	Lung	lung
5	chr4:106518200-106524400	Weak transcription	Pancreas	Pancrea
6	chr4:106520200-106526400	Weak transcription	NHEK	skin
7	chr4:106520400-106523600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr4:106520800-106523600	Weak transcription	Fetal Intestine Large	intestine
9	chr4:106521200-106522800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr4:106521200-106523400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr4:106521200-106526800	Weak transcription	Stomach Mucosa	stomach
12	chr4:106521400-106526800	Weak transcription	Fetal Intestine Small	intestine
13	chr4:106521600-106522800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr4:106521600-106526600	Weak transcription	Fetal Heart	heart
15	chr4:106521800-106526400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr4:106521800-106545600	Weak transcription	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links