Variant report

Variant	rs59356989
Chromosome Location	chr5:107423766-107423767
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:107422254..107425406-chr5:107428129..107431708,3	K562	blood:

Extended variants
information (count: 70 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10037490	0.80[EUR][1000 genomes]
rs10515384	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12651724	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12652306	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12652643	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12652687	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12652883	0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12654751	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12655475	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12655573	0.80[EUR][1000 genomes]
rs12655932	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12656140	0.80[EUR][1000 genomes]
rs12659666	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13357987	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17381296	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17382278	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17383035	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17384285	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17437658	0.80[EUR][1000 genomes]
rs17438307	0.80[EUR][1000 genomes]
rs17439150	0.83[EUR][1000 genomes]
rs17439877	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17440508	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17440818	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17440916	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17441920	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17442211	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17442864	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17443045	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17449654	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17449723	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2042187	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28670811	0.80[EUR][1000 genomes]
rs4144476	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4144478	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4404664	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4582260	0.80[EUR][1000 genomes]
rs55780614	0.81[EUR][1000 genomes]
rs55862455	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56108486	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56287990	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs58342334	0.81[EUR][1000 genomes]
rs58805667	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59606487	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59711822	0.81[EUR][1000 genomes]
rs59830006	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60447697	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6864731	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6865057	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6872068	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6872913	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6884026	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6889772	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6890052	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs723397	0.87[EUR][1000 genomes]
rs73204759	0.80[EUR][1000 genomes]
rs73204760	0.80[EUR][1000 genomes]
rs73204763	0.80[EUR][1000 genomes]
rs73204764	0.80[EUR][1000 genomes]
rs73204766	0.80[EUR][1000 genomes]
rs73204790	0.81[EUR][1000 genomes]
rs73204796	0.83[EUR][1000 genomes]
rs73206507	0.82[EUR][1000 genomes]
rs73206538	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7704251	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7731562	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7735773	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882682	chr5:107213361-107458336	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv534281	chr5:107357579-107674981	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv1029650	chr5:107370079-107435314	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107388400-107510800	Weak transcription	Primary B cells from cord blood	blood
2	chr5:107403800-107429800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr5:107414800-107427800	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr5:107416000-107443600	Weak transcription	Primary T cells from cord blood	blood
5	chr5:107416200-107424200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr5:107416800-107427400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr5:107419200-107436600	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr5:107420000-107424800	Weak transcription	Fetal Intestine Small	intestine
9	chr5:107420000-107433000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr5:107420200-107424400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr5:107420200-107426600	Weak transcription	Brain Hippocampus Middle	brain
12	chr5:107420200-107426800	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr5:107420200-107427800	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr5:107421000-107426800	Weak transcription	Fetal Lung	lung
15	chr5:107421200-107426000	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr5:107421400-107426200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr5:107421400-107426800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr5:107421400-107437000	Weak transcription	Psoas Muscle	Psoas
19	chr5:107421600-107425600	Weak transcription	Left Ventricle	heart
20	chr5:107421800-107424000	Weak transcription	Spleen	Spleen
21	chr5:107423000-107426600	Weak transcription	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links