Variant report

Variant	rs248700
Chromosome Location	chr5:126995837-126995838
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10041967	0.90[EUR][1000 genomes]
rs10061252	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1007623	0.90[EUR][1000 genomes]
rs10519953	0.95[EUR][1000 genomes]
rs1086523	0.91[EUR][1000 genomes]
rs1086524	0.88[EUR][1000 genomes]
rs1086525	0.91[EUR][1000 genomes]
rs1086526	0.91[EUR][1000 genomes]
rs1086527	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1086529	0.91[EUR][1000 genomes]
rs1086530	0.90[EUR][1000 genomes]
rs1086531	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1086532	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1086533	0.91[EUR][1000 genomes]
rs1086534	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1088167	0.91[EUR][1000 genomes]
rs10900792	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1092720	0.91[EUR][1000 genomes]
rs11241938	0.89[EUR][1000 genomes]
rs11241939	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1213827	0.90[EUR][1000 genomes]
rs1234542	0.90[EUR][1000 genomes]
rs12652197	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1432958	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1560673	0.85[EUR][1000 genomes]
rs173580	0.90[EUR][1000 genomes]
rs173581	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs173582	0.89[EUR][1000 genomes]
rs1816404	0.90[EUR][1000 genomes]
rs1816405	0.90[EUR][1000 genomes]
rs187461	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs193736	0.89[EUR][1000 genomes]
rs248689	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs248690	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs248691	0.94[EUR][1000 genomes]
rs248692	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs248696	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs248698	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs248701	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs248702	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs248706	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs248709	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs248711	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs248712	0.91[EUR][1000 genomes]
rs248713	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs248715	0.91[EUR][1000 genomes]
rs248716	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs248717	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs248718	0.90[EUR][1000 genomes]
rs248720	0.88[EUR][1000 genomes]
rs248721	0.88[EUR][1000 genomes]
rs248722	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs248724	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs248730	0.89[EUR][1000 genomes]
rs248731	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs248732	0.89[EUR][1000 genomes]
rs248733	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs248735	0.89[EUR][1000 genomes]
rs248737	0.88[EUR][1000 genomes]
rs248738	0.89[EUR][1000 genomes]
rs248739	0.89[EUR][1000 genomes]
rs248740	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs248741	0.89[EUR][1000 genomes]
rs248742	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2569142	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2569144	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2673749	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2673750	0.91[EUR][1000 genomes]
rs2673763	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2673764	0.85[EUR][1000 genomes]
rs4340958	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4361571	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs45074	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs54201	0.89[EUR][1000 genomes]
rs62373501	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62373502	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6595789	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7714847	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7736233	0.85[EUR][1000 genomes]
rs790827	0.85[EUR][1000 genomes]
rs791071	0.91[EUR][1000 genomes]
rs791072	0.91[EUR][1000 genomes]
rs791073	0.91[EUR][1000 genomes]
rs791074	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs809349	0.91[EUR][1000 genomes]
rs812059	0.82[EUR][1000 genomes]
rs899190	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033607	chr5:126385181-127304459	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv830479	chr5:126849254-127053121	Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv1021483	chr5:126927834-127304873	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv830480	chr5:126964751-127124522	Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv599664	chr5:126974071-127016256	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:126988000-126996000	Weak transcription	Rectal Smooth Muscle	rectum
2	chr5:126991400-127001800	Weak transcription	Fetal Lung	lung
3	chr5:126994800-126996400	Enhancers	Fetal Kidney	kidney
4	chr5:126995200-126996400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr5:126995200-126996600	Enhancers	Colon Smooth Muscle	Colon
6	chr5:126995400-126996200	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr5:126995400-126996400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr5:126995400-126996400	Enhancers	Breast Myoepithelial Primary Cells	Breast
9	chr5:126995400-126996400	Enhancers	Ovary	ovary
10	chr5:126995400-126996400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
11	chr5:126995400-126996600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr5:126995400-126996600	Enhancers	Fetal Heart	heart
13	chr5:126995400-126996600	Enhancers	Skeletal Muscle Male	skeletal muscle
14	chr5:126995600-126996000	Enhancers	H1 Cell Line	embryonic stem cell
15	chr5:126995600-126996000	Enhancers	Psoas Muscle	Psoas
16	chr5:126995600-126996200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr5:126995600-126996200	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr5:126995600-126996200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr5:126995600-126996200	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr5:126995600-126996200	Enhancers	Stomach Smooth Muscle	stomach
21	chr5:126995600-126996400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr5:126995600-126996400	Enhancers	Left Ventricle	heart
23	chr5:126995600-126996600	Enhancers	Fetal Muscle Leg	muscle
24	chr5:126995600-126997200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr5:126995800-126996200	Enhancers	Fetal Stomach	stomach
26	chr5:126995800-126996600	Enhancers	Duodenum Smooth Muscle	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links