Variant report

Variant	rs525486
Chromosome Location	chr3:155252232-155252233
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1084714	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10936011	0.82[ASN][1000 genomes]
rs12486000	0.81[ASN][1000 genomes]
rs12493067	0.82[ASN][1000 genomes]
rs13060809	0.81[ASN][1000 genomes]
rs13077520	0.83[ASN][1000 genomes]
rs13082287	0.81[ASN][1000 genomes]
rs168601	0.96[ASN][1000 genomes]
rs173384	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs359541	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs359543	0.98[ASN][1000 genomes]
rs359544	0.88[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs359545	0.82[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs359546	0.90[ASN][1000 genomes]
rs359560	0.85[ASN][1000 genomes]
rs4618256	0.81[ASN][1000 genomes]
rs4679748	0.96[ASN][1000 genomes]
rs4680190	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs498378	0.88[ASN][1000 genomes]
rs499014	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs520406	0.95[ASN][1000 genomes]
rs529325	0.97[ASN][1000 genomes]
rs533168	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs545255	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs592982	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs595076	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs596578	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs597718	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs599043	0.85[EUR][1000 genomes]
rs610514	0.99[ASN][1000 genomes]
rs629698	0.99[ASN][1000 genomes]
rs6441000	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs673417	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6777148	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs687462	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs783549	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs783552	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs783553	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs934592	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs934593	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[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	esv2763309	chr3:155193454-155256770	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155230600-155271400	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr3:155231200-155253000	Weak transcription	A549	lung
3	chr3:155232200-155253000	Weak transcription	Fetal Intestine Large	intestine
4	chr3:155232200-155258800	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr3:155232200-155274000	Weak transcription	Pancreas	Pancrea
6	chr3:155241800-155273000	Weak transcription	Duodenum Mucosa	Duodenum
7	chr3:155244800-155258800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr3:155247200-155253000	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr3:155248400-155260000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr3:155249200-155253800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr3:155249400-155252800	Weak transcription	HepG2	liver
12	chr3:155249400-155254000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr3:155249800-155254000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr3:155250200-155258800	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr3:155250400-155258600	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr3:155250600-155252600	Strong transcription	Dnd41	blood
17	chr3:155250600-155253000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr3:155250600-155253200	Weak transcription	Gastric	stomach
19	chr3:155250800-155256800	Weak transcription	Primary T cells from cord blood	blood
20	chr3:155251200-155252400	Strong transcription	Thymus	Thymus
21	chr3:155251400-155253600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr3:155251600-155253600	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
23	chr3:155251800-155254200	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
24	chr3:155252000-155252400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr3:155252000-155252400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr3:155252000-155252600	Strong transcription	Fetal Thymus	thymus
27	chr3:155252000-155252800	Weak transcription	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links