Variant report

Variant	rs260139
Chromosome Location	chr13:67642602-67642603
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:67641629..67645149-chr13:67647169..67649102,3	K562	blood:

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs1022866	0.92[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.86[TSI][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10492596	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10492597	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11148737	0.82[ASN][1000 genomes]
rs11148738	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11617670	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1323911	1.00[JPT][hapmap]
rs1323917	1.00[JPT][hapmap]
rs1323923	1.00[JPT][hapmap]
rs1408170	1.00[JPT][hapmap]
rs1408171	0.86[ASN][1000 genomes]
rs149448	0.82[ASN][1000 genomes]
rs155010	1.00[CHD][hapmap];0.91[GIH][hapmap];0.83[MEX][hapmap]
rs17195259	0.82[ASN][1000 genomes]
rs17195266	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17517438	1.00[CHD][hapmap]
rs17587572	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17589427	1.00[CHD][hapmap]
rs17791001	1.00[JPT][hapmap]
rs17791056	1.00[JPT][hapmap]
rs1924309	1.00[JPT][hapmap]
rs1924310	1.00[JPT][hapmap]
rs1927812	1.00[CHD][hapmap]
rs260131	0.86[ASN][1000 genomes]
rs260140	1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs260145	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs260160	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs260162	0.82[ASN][1000 genomes]
rs260164	0.82[ASN][1000 genomes]
rs260165	0.82[ASN][1000 genomes]
rs260168	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2875517	1.00[CHD][hapmap]
rs56915128	0.86[ASN][1000 genomes]
rs61959241	0.80[EUR][1000 genomes]
rs61959242	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs61959248	0.82[ASN][1000 genomes]
rs61959249	0.82[ASN][1000 genomes]
rs61959360	0.86[ASN][1000 genomes]
rs61959362	0.82[ASN][1000 genomes]
rs61961771	0.86[ASN][1000 genomes]
rs61961774	0.86[ASN][1000 genomes]
rs7317342	0.82[GIH][hapmap]
rs7330064	1.00[CHD][hapmap]
rs7981987	1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs7987190	1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs7987478	1.00[JPT][hapmap]
rs7995254	0.82[GIH][hapmap]
rs7999949	1.00[CHD][hapmap]
rs9317632	1.00[JPT][hapmap]
rs9317633	1.00[JPT][hapmap]
rs9317637	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9529158	1.00[JPT][hapmap]
rs9529163	1.00[JPT][hapmap]
rs9529170	1.00[JPT][hapmap]
rs9529174	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9529180	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs9529181	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9529185	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs9529190	1.00[CHD][hapmap]
rs9540949	1.00[JPT][hapmap]
rs9540952	1.00[JPT][hapmap]
rs9540953	1.00[JPT][hapmap]
rs9540954	1.00[JPT][hapmap]
rs9540960	1.00[JPT][hapmap]
rs9540967	1.00[JPT][hapmap]
rs9540970	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9540971	1.00[JPT][hapmap]
rs9540979	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9540980	0.82[ASN][1000 genomes]
rs9540982	0.86[ASN][1000 genomes]
rs9540983	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs9540984	0.86[ASN][1000 genomes]
rs9540987	0.86[ASN][1000 genomes]
rs9540988	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs9540989	0.86[ASN][1000 genomes]
rs9540993	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9540995	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs9540996	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs9541012	1.00[CHD][hapmap]
rs9541013	1.00[CHD][hapmap]
rs9571705	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530605	chr13:67126136-67697306	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1035741	chr13:67212973-68077950	Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv541817	chr13:67212973-68077950	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv428604	chr13:67480426-67645030	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv900414	chr13:67515590-67701341	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1045093	chr13:67517932-67693875	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv541821	chr13:67517932-67693875	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv430581	chr13:67572850-67762288	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
9	nsv430582	chr13:67589898-67762299	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv1037217	chr13:67589937-67728156	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	nsv1039600	chr13:67593961-67726047	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv541823	chr13:67593961-67726047	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:67635600-67645000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr13:67637800-67643600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr13:67638000-67644400	Weak transcription	Brain Angular Gyrus	brain
4	chr13:67638000-67644600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr13:67638400-67643400	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr13:67638400-67649800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr13:67640200-67649200	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr13:67641400-67643400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr13:67642200-67644400	Weak transcription	Brain Substantia Nigra	brain
10	chr13:67642600-67643000	Enhancers	Brain Anterior Caudate	brain
11	chr13:67642600-67643000	Flanking Active TSS	A549	lung
12	chr13:67642600-67643200	Enhancers	Brain Cingulate Gyrus	brain
13	chr13:67642600-67645400	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr13:67642600-67647200	Enhancers	Brain Hippocampus Middle	brain

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