Variant report

Variant	rs10056658
Chromosome Location	chr5:107710425-107710426
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10055785	0.81[ASN][1000 genomes]
rs10057274	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10057905	0.90[EUR][1000 genomes]
rs10070565	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10072616	0.90[ASN][1000 genomes]
rs10477889	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10477894	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12521975	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13174270	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1839224	0.90[EUR][1000 genomes]
rs2044711	0.90[EUR][1000 genomes]
rs2122157	0.90[EUR][1000 genomes]
rs28584643	0.87[ASN][1000 genomes]
rs286762	0.88[EUR][1000 genomes]
rs286765	0.86[EUR][1000 genomes]
rs286766	0.86[EUR][1000 genomes]
rs28868900	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2922409	0.89[EUR][1000 genomes]
rs2922410	0.89[EUR][1000 genomes]
rs2922411	0.90[EUR][1000 genomes]
rs2922413	0.90[EUR][1000 genomes]
rs2922414	0.90[EUR][1000 genomes]
rs2922415	0.90[EUR][1000 genomes]
rs2922416	0.90[EUR][1000 genomes]
rs2922419	0.90[EUR][1000 genomes]
rs2922434	0.90[EUR][1000 genomes]
rs2966794	0.90[EUR][1000 genomes]
rs2966805	0.90[EUR][1000 genomes]
rs2966806	0.90[EUR][1000 genomes]
rs2966807	0.82[EUR][1000 genomes]
rs2966808	0.90[EUR][1000 genomes]
rs2966809	0.90[EUR][1000 genomes]
rs2966810	0.90[EUR][1000 genomes]
rs2966812	0.90[EUR][1000 genomes]
rs2966815	0.90[EUR][1000 genomes]
rs2966817	0.89[EUR][1000 genomes]
rs2966819	0.90[EUR][1000 genomes]
rs34019963	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34088844	0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs35053804	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35624833	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35959276	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3756573	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs399438	0.88[EUR][1000 genomes]
rs4276393	0.90[EUR][1000 genomes]
rs4385196	0.91[EUR][1000 genomes]
rs4957750	0.91[EUR][1000 genomes]
rs66855775	0.91[EUR][1000 genomes]
rs6860212	0.83[EUR][1000 genomes]
rs715638	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882683	chr5:107476501-107769095	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv882686	chr5:107564746-107769095	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv882688	chr5:107595383-107715746	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv882689	chr5:107595383-108299744	Enhancers ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
5	esv2755544	chr5:107614101-107748101	Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107697200-107715200	Weak transcription	HSMM	muscle
2	chr5:107698200-107715600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr5:107699000-107712800	Weak transcription	Right Ventricle	heart
4	chr5:107706400-107714200	Weak transcription	Left Ventricle	heart
5	chr5:107707600-107710600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr5:107708600-107716200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr5:107709200-107711000	ZNF genes & repeats	Fetal Intestine Small	intestine
8	chr5:107709200-107712200	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr5:107709600-107713800	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr5:107709600-107714200	Weak transcription	Gastric	stomach
11	chr5:107709600-107715600	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr5:107709600-107715600	Weak transcription	Thymus	Thymus
13	chr5:107709600-107716000	Weak transcription	Ovary	ovary
14	chr5:107709800-107715200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr5:107710000-107715600	Weak transcription	HSMMtube	muscle
16	chr5:107710200-107714400	Weak transcription	Primary T cells from cord blood	blood
17	chr5:107710400-107710600	Weak transcription	Pancreas	Pancrea

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