Variant report

Variant	rs13025838
Chromosome Location	chr2:77185856-77185857
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10165789	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10168341	0.96[EUR][1000 genomes]
rs10170002	0.92[CEU][hapmap];0.96[EUR][1000 genomes]
rs10186670	0.95[EUR][1000 genomes]
rs10187924	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10193253	1.00[CEU][hapmap]
rs10193590	0.91[CEU][hapmap]
rs10193677	0.92[CEU][hapmap];0.96[EUR][1000 genomes]
rs10194816	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10195940	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs10199630	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs10201531	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs10204605	0.92[CEU][hapmap];0.95[EUR][1000 genomes]
rs10205089	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs10205987	0.83[CEU][hapmap];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10209929	0.95[EUR][1000 genomes]
rs10520170	0.92[CEU][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11126577	0.96[EUR][1000 genomes]
rs11884377	0.92[CEU][hapmap];0.95[EUR][1000 genomes]
rs11885408	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11886263	0.83[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11886826	0.95[EUR][1000 genomes]
rs11895300	0.96[EUR][1000 genomes]
rs11899785	0.94[EUR][1000 genomes]
rs12713885	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs12988557	0.83[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13007111	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13016203	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13413625	0.84[CEU][hapmap];0.89[EUR][1000 genomes]
rs13414920	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13417401	0.92[CEU][hapmap];0.95[EUR][1000 genomes]
rs13423489	0.96[EUR][1000 genomes]
rs1446711	0.92[EUR][1000 genomes]
rs1446728	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs17013381	0.92[CEU][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17013387	0.92[CEU][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17013449	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17333446	0.82[CEU][hapmap];1.00[JPT][hapmap]
rs17405232	0.83[CEU][hapmap];0.91[JPT][hapmap];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1947115	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1947116	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1982340	0.91[JPT][hapmap]
rs34256194	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35573263	0.88[ASN][1000 genomes]
rs4852420	0.84[CEU][hapmap];1.00[JPT][hapmap]
rs4852421	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4852423	0.84[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7355718	1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs7583560	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7607753	0.91[JPT][hapmap]
rs9309506	0.95[EUR][1000 genomes]
rs9309507	0.92[CEU][hapmap];0.95[EUR][1000 genomes]
rs9973564	0.92[CEU][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9973567	0.92[CEU][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv874322	chr2:77031247-77209750	Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	esv2752990	chr2:77038541-77217310	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv874324	chr2:77048896-77201916	Weak transcription Enhancers Active TSS ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv874327	chr2:77085752-77209750	Enhancers Weak transcription Active TSS	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv874328	chr2:77096124-77196122	Enhancers Weak transcription Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv874329	chr2:77096124-77209750	Enhancers Weak transcription Active TSS	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv874330	chr2:77103719-77209750	Weak transcription Enhancers Active TSS	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv834266	chr2:77120236-77287504	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv949670	chr2:77125218-77712607	Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv818054	chr2:77172693-77192765	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv1008307	chr2:77174354-77197565	Weak transcription Active TSS Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
12	esv2756931	chr2:77185856-77209051	Enhancers Weak transcription Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	esv2759066	chr2:77185856-77209051	Weak transcription Enhancers Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:77182200-77186800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr2:77183000-77186200	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr2:77185600-77186800	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr2:77185600-77187400	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr2:77185800-77186800	Enhancers	HUES64 Cell Line	embryonic stem cell

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