Variant report

Variant	rs1880369
Chromosome Location	chr7:69646229-69646230
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 107 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs10085696	0.84[ASN][1000 genomes]
rs1014059	0.86[ASN][1000 genomes]
rs10262697	0.84[ASN][1000 genomes]
rs10499813	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12112758	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12113555	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12155144	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12669794	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs12673575	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12698820	0.90[ASN][1000 genomes]
rs12698838	0.96[ASN][1000 genomes]
rs12698841	0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs12698843	0.97[ASN][1000 genomes]
rs12698846	0.86[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12698847	0.86[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12698850	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12698851	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12698853	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12698856	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12698857	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12698859	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12698861	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12698862	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12698864	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12698865	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12698867	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12698869	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12698873	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12698875	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12698879	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12698880	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12698882	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12698883	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12698884	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12698886	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12698892	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12698893	0.84[ASN][1000 genomes]
rs13229686	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13231497	0.96[ASN][1000 genomes]
rs13236841	0.86[ASN][1000 genomes]
rs13238017	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13242485	0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs13247796	0.92[ASN][1000 genomes]
rs13340492	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1404275	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1476104	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1476105	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs17365011	0.92[ASN][1000 genomes]
rs17365333	0.84[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs17365375	0.84[AFR][1000 genomes]
rs17462837	0.84[AFR][1000 genomes]
rs17604001	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17762460	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2030705	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2030706	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2866275	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs34519726	0.84[AFR][1000 genomes]
rs35062112	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35317642	0.81[AFR][1000 genomes]
rs4318956	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4475377	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4623296	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs58849135	0.83[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs6460539	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs66936223	0.84[EUR][1000 genomes]
rs67847242	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6943610	0.97[ASN][1000 genomes]
rs6943630	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6945241	0.85[EUR][1000 genomes]
rs6946066	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6948676	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6953075	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6964139	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6971237	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6975814	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6978841	0.84[ASN][1000 genomes]
rs6978919	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs735060	0.80[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs7779308	0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs7780640	0.87[AFR][1000 genomes]
rs7782771	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7783039	0.92[ASN][1000 genomes]
rs7783592	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7783748	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7790084	0.88[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs7791954	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7796592	0.93[ASN][1000 genomes]
rs7799192	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7800759	0.88[ASN][1000 genomes]
rs7803814	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7806363	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7807263	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7808588	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs870919	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs877188	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs917717	0.84[AFR][1000 genomes]
rs9638582	0.97[ASN][1000 genomes]
rs9647931	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9647932	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9691023	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];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	nsv817276	chr7:69130237-69736834	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1018749	chr7:69149029-69995112	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1018289	chr7:69383450-69650885	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv538922	chr7:69383450-69650885	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv532782	chr7:69383651-70189959	Weak transcription Genic enhancers Enhancers Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1020488	chr7:69465268-69671126	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv916345	chr7:69520612-69784809	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:69643600-69654400	Weak transcription	Primary B cells from cord blood	blood
2	chr7:69644200-69647400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr7:69644600-69647800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr7:69644600-69648000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr7:69644600-69648200	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr7:69644800-69647200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr7:69644800-69648200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr7:69645000-69647800	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr7:69645000-69648000	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr7:69645000-69648000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr7:69645000-69648400	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr7:69645200-69648000	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr7:69645600-69647000	Weak transcription	Dnd41	blood
14	chr7:69645800-69648200	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr7:69645800-69648600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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