Variant report

Variant	rs16902181
Chromosome Location	chr5:1966852-1966853
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10037957	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10038712	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10040620	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10512638	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12513689	0.84[ASN][1000 genomes]
rs12659582	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13179979	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13187786	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2087141	0.82[ASN][1000 genomes]
rs33941693	0.82[ASN][1000 genomes]
rs34262770	0.82[ASN][1000 genomes]
rs35479209	0.82[ASN][1000 genomes]
rs4975778	1.00[ASW][hapmap];0.80[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.86[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4975781	0.80[ASN][1000 genomes]
rs56350722	0.82[ASN][1000 genomes]
rs62337136	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62337140	0.82[ASN][1000 genomes]
rs66512005	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72708618	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817407	chr5:1495354-2191460	Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	107 gene(s)	inside rSNPs	diseases
2	nsv869236	chr5:1719263-2259100	Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
3	nsv915846	chr5:1891098-2167677	Active TSS Genic enhancers Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv1026930	chr5:1898993-2126061	Bivalent/Poised TSS Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv508344	chr5:1905222-1976860	Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	nsv881562	chr5:1907974-1976187	Enhancers Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	nsv427705	chr5:1950467-2115059	Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:1961200-1967800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr5:1964000-1972800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr5:1964600-1967200	Weak transcription	HMEC	breast
4	chr5:1964800-1967800	Enhancers	Fetal Muscle Trunk	muscle
5	chr5:1965200-1968400	Enhancers	Fetal Muscle Leg	muscle
6	chr5:1966000-1967200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr5:1966000-1968200	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr5:1966200-1967000	Enhancers	H1 Cell Line	embryonic stem cell
9	chr5:1966200-1967000	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr5:1966200-1967000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr5:1966200-1967400	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr5:1966200-1968200	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr5:1966400-1967600	Weak transcription	Dnd41	blood
14	chr5:1966600-1967000	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr5:1966600-1967400	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr5:1966800-1967200	Enhancers	Fetal Stomach	stomach
17	chr5:1966800-1967400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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