Variant report

Variant	rs2410944
Chromosome Location	chr5:106453462-106453463
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10043144	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10043242	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10060196	0.85[ASN][1000 genomes]
rs1030172	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1030173	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1030174	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10515368	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10900898	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11242625	0.86[ASN][1000 genomes]
rs11242627	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1159077	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1159078	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11749835	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11960038	0.80[ASN][1000 genomes]
rs12522490	0.82[ASN][1000 genomes]
rs12522515	0.82[ASN][1000 genomes]
rs12658379	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1345636	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1363313	0.82[ASN][1000 genomes]
rs17384663	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17386596	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1833606	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1990908	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2161234	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2410933	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2410938	0.80[ASN][1000 genomes]
rs2410939	0.82[ASN][1000 genomes]
rs2410940	0.84[ASN][1000 genomes]
rs2410941	0.89[ASN][1000 genomes]
rs2410942	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2410943	0.85[ASN][1000 genomes]
rs2410945	0.85[ASN][1000 genomes]
rs2410946	0.83[ASN][1000 genomes]
rs2410947	0.85[ASN][1000 genomes]
rs2410948	0.85[ASN][1000 genomes]
rs2410949	0.85[ASN][1000 genomes]
rs2410951	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2410952	0.84[ASN][1000 genomes]
rs2410979	0.81[EUR][1000 genomes]
rs2898604	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35814230	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4245993	0.85[ASN][1000 genomes]
rs4631165	0.84[ASN][1000 genomes]
rs4637535	0.85[ASN][1000 genomes]
rs4957531	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4957687	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4957688	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4957690	0.80[ASN][1000 genomes]
rs55689542	0.82[ASN][1000 genomes]
rs6596719	0.84[ASN][1000 genomes]
rs6596720	0.85[ASN][1000 genomes]
rs6596721	0.85[ASN][1000 genomes]
rs6596722	0.84[ASN][1000 genomes]
rs6862257	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6862498	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6865431	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6866458	0.80[ASN][1000 genomes]
rs6871050	0.82[ASN][1000 genomes]
rs6871532	0.85[ASN][1000 genomes]
rs6878038	0.93[ASN][1000 genomes]
rs6887291	0.80[ASN][1000 genomes]
rs6892104	0.82[ASN][1000 genomes]
rs6895080	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7706390	0.85[ASN][1000 genomes]
rs7710297	0.82[ASN][1000 genomes]
rs7710595	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7716820	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7733658	0.83[ASN][1000 genomes]
rs7736860	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030118	chr5:106006097-106847949	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv823170	chr5:106326293-106673695	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv599332	chr5:106403516-106502006	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv2752056	chr5:106422649-106563101	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106448400-106454000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr5:106452000-106454800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr5:106452600-106454000	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr5:106452600-106454000	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr5:106452600-106454600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr5:106452600-106454800	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr5:106452800-106456400	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr5:106453000-106453600	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr5:106453000-106454000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr5:106453000-106454400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr5:106453000-106455400	Weak transcription	Fetal Heart	heart
12	chr5:106453200-106453600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr5:106453200-106453600	Weak transcription	iPS-20b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links