Variant report

Variant	rs4109977
Chromosome Location	chr7:146103755-146103756
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 117 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs1011486	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs10238194	0.80[CHB][hapmap];0.83[JPT][hapmap]
rs10243810	0.90[JPT][hapmap]
rs10249426	0.90[JPT][hapmap]
rs10255515	0.86[CHB][hapmap]
rs10262298	0.90[JPT][hapmap]
rs10267655	0.86[CHB][hapmap];0.87[JPT][hapmap]
rs10269958	0.85[CEU][hapmap];0.80[CHB][hapmap];1.00[JPT][hapmap]
rs10275248	0.86[CHB][hapmap]
rs10487936	0.95[CEU][hapmap];0.80[CHB][hapmap];0.82[EUR][1000 genomes]
rs12667234	0.85[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs12670728	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12672819	0.86[CEU][hapmap];0.93[CHB][hapmap];0.85[EUR][1000 genomes]
rs12673296	0.81[CEU][hapmap];0.93[CHB][hapmap]
rs12703801	0.81[CEU][hapmap]
rs12703814	0.80[CHB][hapmap]
rs13237342	0.95[CEU][hapmap];0.84[CHB][hapmap]
rs13247443	0.83[EUR][1000 genomes]
rs1358078	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1526146	0.83[JPT][hapmap]
rs1526147	0.83[CEU][hapmap];0.92[CHB][hapmap]
rs1526154	0.86[CEU][hapmap];0.80[CHB][hapmap];1.00[JPT][hapmap]
rs1526158	0.85[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap]
rs1526159	0.90[CEU][hapmap];0.80[CHB][hapmap]
rs1526161	0.93[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1558412	1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1639432	1.00[JPT][hapmap]
rs1639437	0.89[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1639438	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1639446	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs1639460	0.86[CHB][hapmap];0.84[JPT][hapmap]
rs1639465	0.81[CEU][hapmap];0.86[CHB][hapmap]
rs1639470	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs1639471	0.81[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap]
rs1639480	1.00[CEU][hapmap];0.80[CHB][hapmap];0.89[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1639481	0.80[CHB][hapmap];0.89[JPT][hapmap]
rs1639483	0.94[JPT][hapmap]
rs1639484	0.90[JPT][hapmap]
rs1639516	0.86[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs1718070	0.91[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1718076	0.90[JPT][hapmap]
rs1718083	0.80[ASN][1000 genomes]
rs1718093	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs1718099	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1724472	1.00[JPT][hapmap]
rs1724497	1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1724498	0.80[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1724506	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1724507	0.82[ASN][1000 genomes]
rs1724528	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1724532	0.99[ASN][1000 genomes]
rs17505462	0.86[CHB][hapmap]
rs17583547	0.86[CHB][hapmap]
rs1860684	0.82[CEU][hapmap]
rs2021559	0.86[CEU][hapmap];0.80[CHB][hapmap];1.00[JPT][hapmap]
rs2030846	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs2058375	0.90[JPT][hapmap]
rs2058376	0.90[JPT][hapmap]
rs2058377	1.00[CEU][hapmap];0.80[CHB][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2109695	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2109696	0.82[EUR][1000 genomes]
rs2372492	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2535749	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2535750	0.81[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap]
rs2535753	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2535754	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[EUR][1000 genomes]
rs2888335	0.86[CEU][hapmap];0.80[CHB][hapmap];1.00[JPT][hapmap]
rs34079621	0.95[CEU][hapmap];0.80[CHB][hapmap];0.82[EUR][1000 genomes]
rs34086340	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34137151	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34199552	0.88[EUR][1000 genomes]
rs34416126	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4618611	0.86[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap]
rs4725691	0.93[CEU][hapmap]
rs4725692	0.95[CEU][hapmap];0.80[CHB][hapmap]
rs4725694	0.86[CEU][hapmap];0.80[CHB][hapmap];1.00[JPT][hapmap]
rs4726785	0.95[CEU][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs57803192	0.89[EUR][1000 genomes]
rs6464757	0.81[CEU][hapmap]
rs6464758	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6464759	0.86[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6948846	0.82[CEU][hapmap]
rs6951145	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6955314	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6963627	0.80[CHB][hapmap];0.83[JPT][hapmap]
rs6978796	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs700273	0.94[JPT][hapmap]
rs73164014	0.99[EUR][1000 genomes]
rs766503	0.99[ASN][1000 genomes]
rs7776593	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7779185	0.95[JPT][hapmap]
rs7780801	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7781575	0.86[CEU][hapmap];0.80[CHB][hapmap]
rs7782757	0.86[CHB][hapmap]
rs7784672	0.84[CEU][hapmap];0.80[CHB][hapmap];1.00[JPT][hapmap]
rs7784977	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs7790657	0.97[EUR][1000 genomes]
rs7794014	0.86[CHB][hapmap]
rs7803018	0.84[CEU][hapmap];0.84[EUR][1000 genomes]
rs7803472	0.85[CEU][hapmap];0.80[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7805539	0.95[JPT][hapmap]
rs802191	0.93[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs802194	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs802195	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs802196	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs802200	0.93[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs802203	0.93[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9771006	0.86[CEU][hapmap];0.80[CHB][hapmap]
rs986264	0.82[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv889384	chr7:145541783-146239545	Genic enhancers Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1020950	chr7:145683419-146264304	Enhancers Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv889387	chr7:145903862-146239545	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv533345	chr7:145934546-146134958	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv889389	chr7:145998111-146121539	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv917027	chr7:146069317-146194011	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv1024679	chr7:146091479-146248268	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1017138	chr7:146102286-146318562	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:146089000-146109400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr7:146103400-146110200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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