Variant report

Variant	rs10241888
Chromosome Location	chr7:120936006-120936007
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:120933951..120936466-chr7:120939133..120942638,4	K562	blood:

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10231005	0.91[EUR][1000 genomes]
rs10233441	0.94[EUR][1000 genomes]
rs10276111	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10276127	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10277699	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10282303	0.95[EUR][1000 genomes]
rs12534075	0.84[ASW][hapmap];0.83[CEU][hapmap];0.95[CHB][hapmap];0.80[CHD][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.86[YRI][hapmap];0.90[ASN][1000 genomes]
rs1547959	0.94[EUR][1000 genomes]
rs1547960	0.94[EUR][1000 genomes]
rs2707521	0.90[EUR][1000 genomes]
rs2952556	1.00[CEU][hapmap];0.88[TSI][hapmap];0.90[EUR][1000 genomes]
rs34155977	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35883000	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6947246	0.94[EUR][1000 genomes]
rs6952851	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs6961083	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs6980043	0.94[EUR][1000 genomes]
rs7778200	0.95[EUR][1000 genomes]
rs7794940	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7795061	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7809135	0.93[EUR][1000 genomes]
rs798906	0.83[CEU][hapmap]
rs798907	0.83[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025430	chr7:120638930-121179289	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv1034353	chr7:120818382-121040576	Enhancers Bivalent Enhancer Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv1026322	chr7:120841937-121188037	Weak transcription Strong transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv539102	chr7:120841937-121188037	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Weak transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
5	esv2755350	chr7:120848049-121119049	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
6	nsv1027619	chr7:120906437-120976630	Enhancers Bivalent Enhancer Strong transcription Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	esv2757237	chr7:120908459-120993326	Enhancers Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
8	esv2759558	chr7:120908459-120993326	Flanking Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
9	nsv1032054	chr7:120926379-121432971	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
10	nsv539103	chr7:120926379-121432971	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10241888	LMOD2	cis	parietal	SCAN

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:120872600-120936600	Weak transcription	Psoas Muscle	Psoas
2	chr7:120888800-120937800	Weak transcription	Colon Smooth Muscle	Colon
3	chr7:120926200-120941000	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr7:120926600-120937600	Weak transcription	Ovary	ovary
5	chr7:120929200-120941200	Weak transcription	NHDF-Ad	bronchial
6	chr7:120929400-120941400	Weak transcription	NHLF	lung
7	chr7:120929600-120938000	Weak transcription	Osteobl	bone
8	chr7:120929600-120944800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr7:120929800-120937600	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr7:120930200-120938200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr7:120932000-120942400	Weak transcription	Lung	lung
12	chr7:120932600-120936400	Strong transcription	K562	blood
13	chr7:120932800-120937000	Strong transcription	Adipose Nuclei	Adipose
14	chr7:120932800-120942400	Weak transcription	Esophagus	oesophagus
15	chr7:120933200-120936200	Strong transcription	Skeletal Muscle Male	skeletal muscle
16	chr7:120933400-120941600	Weak transcription	Right Ventricle	heart
17	chr7:120933600-120942000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr7:120933800-120941400	Weak transcription	Fetal Stomach	stomach
19	chr7:120933800-120941800	Weak transcription	Left Ventricle	heart
20	chr7:120933800-120942200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr7:120934000-120939600	Weak transcription	Aorta	Aorta
22	chr7:120935200-120936200	Strong transcription	Duodenum Smooth Muscle	Duodenum
23	chr7:120935200-120936600	Strong transcription	Liver	Liver
24	chr7:120935200-120938400	Strong transcription	HSMM	muscle
25	chr7:120935600-120936200	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr7:120935600-120936200	Strong transcription	Skeletal Muscle Female	skeletal muscle
27	chr7:120935600-120936600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr7:120935800-120941400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr7:120936000-120938200	Weak transcription	Fetal Heart	heart
30	chr7:120936000-120939800	Weak transcription	Stomach Smooth Muscle	stomach
31	chr7:120936000-120944000	Weak transcription	HSMMtube	muscle

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