Variant report

Variant	rs62170916
Chromosome Location	chr2:77282369-77282370
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10208087	0.83[EUR][1000 genomes]
rs10520177	0.86[EUR][1000 genomes]
rs1075716	0.85[EUR][1000 genomes]
rs1077111	0.86[EUR][1000 genomes]
rs13388459	0.83[EUR][1000 genomes]
rs13413951	0.83[EUR][1000 genomes]
rs1345137	0.90[EUR][1000 genomes]
rs1446708	0.83[EUR][1000 genomes]
rs1446721	0.86[EUR][1000 genomes]
rs17013567	0.82[EUR][1000 genomes]
rs17013635	0.89[EUR][1000 genomes]
rs17333926	0.83[EUR][1000 genomes]
rs17334205	0.86[EUR][1000 genomes]
rs17334240	0.86[EUR][1000 genomes]
rs17334254	0.86[EUR][1000 genomes]
rs17334261	0.86[EUR][1000 genomes]
rs17334527	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17334647	0.83[EUR][1000 genomes]
rs17405864	0.86[EUR][1000 genomes]
rs17405905	0.86[EUR][1000 genomes]
rs17405953	0.85[EUR][1000 genomes]
rs17405981	0.85[EUR][1000 genomes]
rs17406023	0.85[EUR][1000 genomes]
rs17406084	0.80[EUR][1000 genomes]
rs17406091	0.85[EUR][1000 genomes]
rs17406146	0.85[EUR][1000 genomes]
rs17406202	0.86[EUR][1000 genomes]
rs17406374	0.89[EUR][1000 genomes]
rs1960005	0.90[EUR][1000 genomes]
rs2077823	0.90[EUR][1000 genomes]
rs4396752	0.86[EUR][1000 genomes]
rs4401235	0.86[EUR][1000 genomes]
rs4447628	0.86[EUR][1000 genomes]
rs4491748	0.87[EUR][1000 genomes]
rs4637153	0.86[EUR][1000 genomes]
rs55800138	0.90[EUR][1000 genomes]
rs55864802	0.90[EUR][1000 genomes]
rs56030888	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56055201	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61197052	0.84[EUR][1000 genomes]
rs62170208	0.86[EUR][1000 genomes]
rs62170209	0.87[EUR][1000 genomes]
rs62170210	0.86[EUR][1000 genomes]
rs62170864	0.86[EUR][1000 genomes]
rs62170865	0.86[EUR][1000 genomes]
rs62170866	0.86[EUR][1000 genomes]
rs62170872	0.90[EUR][1000 genomes]
rs62170895	0.90[EUR][1000 genomes]
rs62170896	0.90[EUR][1000 genomes]
rs62170899	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62170910	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62170911	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62170913	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62170914	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62170918	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62170952	0.80[EUR][1000 genomes]
rs62171961	0.86[EUR][1000 genomes]
rs62171964	0.85[EUR][1000 genomes]
rs62171994	0.85[EUR][1000 genomes]
rs62171995	0.86[EUR][1000 genomes]
rs62171996	0.86[EUR][1000 genomes]
rs62171997	0.86[EUR][1000 genomes]
rs66769122	0.85[EUR][1000 genomes]
rs6742824	0.84[EUR][1000 genomes]
rs72823135	0.83[EUR][1000 genomes]
rs72823137	0.83[EUR][1000 genomes]
rs72823174	0.86[EUR][1000 genomes]
rs72823176	0.83[EUR][1000 genomes]
rs72823182	0.85[EUR][1000 genomes]
rs72823183	0.85[EUR][1000 genomes]
rs72823195	0.90[EUR][1000 genomes]
rs72823196	0.90[EUR][1000 genomes]
rs72823197	0.90[EUR][1000 genomes]
rs72825338	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs956657	0.90[EUR][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	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
2	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
3	nsv997284	chr2:77233426-77303198	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1014895	chr2:77263452-77414507	Active TSS Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv874331	chr2:77264354-77305123	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	TF binding region	1 gene(s)	inside rSNPs	diseases
6	nsv458285	chr2:77276201-77345491	Enhancers Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers	n/a	n/a	inside rSNPs	diseases
7	nsv582252	chr2:77276201-77345491	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:77278800-77286400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr2:77279000-77284000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr2:77280800-77286200	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr2:77281600-77282400	Enhancers	Brain Germinal Matrix	brain
5	chr2:77281600-77286600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr2:77281800-77282400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr2:77282200-77282400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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