Variant report

Variant	rs13157214
Chromosome Location	chr5:56987940-56987941
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:56978767..56981076-chr5:56987149..56990064,2	K562	blood:

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10063185	0.86[EUR][1000 genomes]
rs10461637	0.96[EUR][1000 genomes]
rs10805498	0.99[EUR][1000 genomes]
rs10940569	0.80[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs10940570	0.87[ASN][1000 genomes]
rs10940571	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10940572	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10940573	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10940575	0.86[EUR][1000 genomes]
rs10940576	0.96[EUR][1000 genomes]
rs11738377	0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs11738862	0.87[ASN][1000 genomes]
rs11742166	0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs11742452	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11955303	0.99[EUR][1000 genomes]
rs12153161	0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs12523268	0.96[EUR][1000 genomes]
rs12652614	0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs12654403	0.99[EUR][1000 genomes]
rs13161204	0.87[ASN][1000 genomes]
rs13162397	0.89[EUR][1000 genomes]
rs13166729	0.98[EUR][1000 genomes]
rs13176491	0.99[EUR][1000 genomes]
rs13177213	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13177900	0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs13183265	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13184846	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13185021	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13186318	0.98[EUR][1000 genomes]
rs1476831	0.87[ASN][1000 genomes]
rs1476832	0.87[ASN][1000 genomes]
rs1558367	0.96[EUR][1000 genomes]
rs1860575	0.99[EUR][1000 genomes]
rs2041401	0.99[EUR][1000 genomes]
rs2041402	0.99[EUR][1000 genomes]
rs2041403	0.99[EUR][1000 genomes]
rs2041677	0.87[EUR][1000 genomes]
rs2191447	0.99[EUR][1000 genomes]
rs2191449	0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs2215418	0.99[EUR][1000 genomes]
rs2215421	0.87[ASN][1000 genomes]
rs230854	0.80[AFR][1000 genomes]
rs230855	0.80[AFR][1000 genomes]
rs2408845	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2408847	0.88[EUR][1000 genomes]
rs2408848	0.98[EUR][1000 genomes]
rs4141128	0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs4141129	0.86[EUR][1000 genomes]
rs4699909	0.87[ASN][1000 genomes]
rs4700210	0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs4700211	0.85[ASN][1000 genomes]
rs4700212	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4700213	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4700215	0.98[EUR][1000 genomes]
rs4700217	0.88[EUR][1000 genomes]
rs6860385	0.99[EUR][1000 genomes]
rs6872973	0.98[EUR][1000 genomes]
rs6885246	0.98[EUR][1000 genomes]
rs7711714	0.99[EUR][1000 genomes]
rs7714534	0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs7719947	0.85[ASN][1000 genomes]
rs7725863	0.99[EUR][1000 genomes]
rs7726116	0.99[EUR][1000 genomes]
rs887503	0.87[ASN][1000 genomes]
rs9292141	0.86[EUR][1000 genomes]
rs978225	0.99[EUR][1000 genomes]
rs984529	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525330	chr5:56931673-57320343	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	esv2756302	chr5:56978143-57180143	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:56972400-56988400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr5:56984000-56988000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr5:56984000-56988200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr5:56984000-56988400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr5:56984200-56988400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr5:56984200-56988400	Weak transcription	HMEC	breast
7	chr5:56984200-56988400	Weak transcription	NHEK	skin
8	chr5:56984200-56988600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr5:56984600-56988400	Weak transcription	Psoas Muscle	Psoas
10	chr5:56985600-56990400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr5:56986600-56989800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr5:56986800-56988600	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr5:56986800-56991800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr5:56987000-56992800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr5:56987200-56988600	Enhancers	Brain Inferior Temporal Lobe	brain
16	chr5:56987200-56989200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr5:56987200-56989800	Enhancers	K562	blood
18	chr5:56987400-56988400	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr5:56987400-56988400	Weak transcription	Fetal Intestine Small	intestine
20	chr5:56987400-56988600	Weak transcription	Esophagus	oesophagus
21	chr5:56987400-56988600	Weak transcription	Fetal Heart	heart
22	chr5:56987400-56988800	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr5:56987400-56988800	Weak transcription	Stomach Smooth Muscle	stomach
24	chr5:56987400-56994800	Weak transcription	Right Ventricle	heart
25	chr5:56987600-56988000	Enhancers	Brain Hippocampus Middle	brain
26	chr5:56987600-56988000	Weak transcription	A549	lung
27	chr5:56987600-56988400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr5:56987600-56988400	Weak transcription	Right Atrium	heart
29	chr5:56987600-56988600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr5:56987600-56988600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr5:56987600-56988600	Weak transcription	Brain Substantia Nigra	brain
32	chr5:56987600-56988800	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr5:56987600-56989000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr5:56987600-56989000	Weak transcription	Spleen	Spleen
35	chr5:56987600-56989200	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr5:56987600-56991400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr5:56987600-56991800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr5:56987800-56988200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr5:56987800-56988200	Weak transcription	Brain Angular Gyrus	brain
40	chr5:56987800-56988200	Weak transcription	Brain Cingulate Gyrus	brain
41	chr5:56987800-56988200	Weak transcription	Left Ventricle	heart
42	chr5:56987800-56988200	Weak transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links