Variant report

Variant	rs1690658
Chromosome Location	chr6:118618048-118618049
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10499086	0.94[ASN][1000 genomes]
rs1321985	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1413629	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1413630	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1614226	0.91[EUR][1000 genomes]
rs1622849	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1626650	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1630266	1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1630880	0.81[EUR][1000 genomes]
rs1690648	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1690650	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1690652	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1690653	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1690654	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1690655	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1690657	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1690664	0.94[ASN][1000 genomes]
rs1690667	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1690670	0.91[EUR][1000 genomes]
rs1690671	0.81[EUR][1000 genomes]
rs17079881	0.94[ASN][1000 genomes]
rs17422275	0.94[ASN][1000 genomes]
rs1743242	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1743244	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1743245	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1743247	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1743250	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1743251	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1743256	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1743257	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1743258	0.94[ASN][1000 genomes]
rs1743259	0.94[ASN][1000 genomes]
rs1743261	0.91[EUR][1000 genomes]
rs1761617	0.81[EUR][1000 genomes]
rs1761620	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1761622	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1761624	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1761628	0.81[EUR][1000 genomes]
rs1761629	0.81[EUR][1000 genomes]
rs1761630	0.81[EUR][1000 genomes]
rs1889468	0.94[ASN][1000 genomes]
rs2483916	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2501472	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3734345	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3851206	0.94[ASN][1000 genomes]
rs3900941	0.94[ASN][1000 genomes]
rs3901856	0.88[ASN][1000 genomes]
rs3904613	0.94[ASN][1000 genomes]
rs62421485	0.94[ASN][1000 genomes]
rs62421486	0.94[ASN][1000 genomes]
rs62421489	0.94[ASN][1000 genomes]
rs6924560	0.94[ASN][1000 genomes]
rs7453860	0.94[ASN][1000 genomes]
rs9372498	0.94[ASN][1000 genomes]
rs937275	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs937276	0.81[EUR][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	nsv530526	chr6:118027339-118718476	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv532051	chr6:118551027-119044197	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv1020463	chr6:118593028-119146363	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:118613400-118618400	Enhancers	Rectal Smooth Muscle	rectum
2	chr6:118614400-118620200	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr6:118615000-118618800	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr6:118616400-118618600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr6:118616600-118620000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:118616800-118618600	Enhancers	Liver	Liver
7	chr6:118616800-118620000	Weak transcription	Fetal Stomach	stomach
8	chr6:118617000-118618200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
9	chr6:118617200-118620200	Weak transcription	Stomach Smooth Muscle	stomach
10	chr6:118617400-118618200	Enhancers	Gastric	stomach
11	chr6:118617600-118618600	Weak transcription	Aorta	Aorta
12	chr6:118617600-118618600	Enhancers	Fetal Heart	heart
13	chr6:118617600-118619000	Weak transcription	Left Ventricle	heart
14	chr6:118617600-118619000	Weak transcription	Psoas Muscle	Psoas
15	chr6:118617600-118619000	Weak transcription	Right Atrium	heart
16	chr6:118617800-118618200	Flanking Active TSS	Brain Substantia Nigra	brain
17	chr6:118617800-118618800	Enhancers	Brain Anterior Caudate	brain
18	chr6:118618000-118618200	Active TSS	Skeletal Muscle Male	skeletal muscle
19	chr6:118618000-118619000	Weak transcription	Colon Smooth Muscle	Colon
20	chr6:118618000-118620000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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