Variant report

Variant	rs2299127
Chromosome Location	chr7:39467541-39467542
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 127 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:123)

rs_ID	r²[population]
rs10239767	0.91[CEU][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10239968	0.91[CEU][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10242113	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10249501	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10254703	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10258812	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10261831	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10262012	0.82[ASN][1000 genomes]
rs10267900	0.86[EUR][1000 genomes]
rs10268273	0.91[CEU][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10269203	0.90[CEU][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10269280	0.92[CEU][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10271873	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10272392	0.84[EUR][1000 genomes]
rs1155269	0.90[CEU][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11769625	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11972350	0.89[CEU][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11979059	0.89[CEU][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12112809	0.91[CEU][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12531581	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12536665	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17712872	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs17769600	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs17769607	0.91[CEU][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs17769624	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1860115	0.92[CEU][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2024101	1.00[YRI][hapmap]
rs2073540	0.90[CEU][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2073541	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2073542	0.95[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2073543	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2073544	0.90[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2073546	0.88[CEU][hapmap]
rs2108719	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2108720	0.90[CEU][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2159154	0.91[CEU][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2190888	0.91[CEU][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2190889	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2190890	0.87[CEU][hapmap]
rs2190891	0.91[CEU][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs2215138	0.87[CEU][hapmap]
rs2237368	0.86[EUR][1000 genomes]
rs2237369	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2237370	0.90[CEU][hapmap];0.88[EUR][1000 genomes]
rs2237371	0.90[CEU][hapmap];0.88[EUR][1000 genomes]
rs2237372	0.88[EUR][1000 genomes]
rs2237373	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2237374	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2237376	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2237377	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2237378	0.90[CEU][hapmap];0.89[EUR][1000 genomes]
rs2237379	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2237380	0.91[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2237381	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2237382	0.91[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2237383	0.91[CEU][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2237385	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2237389	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2237390	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2237391	0.91[CEU][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2237393	0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2237395	0.87[CEU][hapmap]
rs2237403	0.85[JPT][hapmap]
rs2282916	0.85[EUR][1000 genomes]
rs2282917	0.95[CEU][hapmap];0.88[EUR][1000 genomes]
rs2282918	0.90[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2299121	0.86[EUR][1000 genomes]
rs2299122	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2299123	0.90[CEU][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2299126	0.88[EUR][1000 genomes]
rs2299128	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2299129	0.91[CEU][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2299130	0.87[JPT][hapmap];0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2299131	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2299132	0.92[CEU][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2299133	0.88[CEU][hapmap];0.82[YRI][hapmap];0.82[AMR][1000 genomes]
rs2302122	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2302123	0.90[CEU][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2302125	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28473216	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28625432	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28627325	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28651247	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2876836	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2876837	0.90[CEU][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2876838	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34731084	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35650049	0.82[EUR][1000 genomes]
rs3778933	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3819413	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3819414	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3819415	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3819417	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3819418	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3819419	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3819420	0.92[CEU][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3819421	0.92[CEU][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3819422	0.91[CEU][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3819423	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3819426	0.91[CEU][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3823618	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4419726	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4535636	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4554374	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4629765	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs56132347	0.82[EUR][1000 genomes]
rs57998785	0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs58810887	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs59085311	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs60003380	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6462917	0.92[CEU][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs67717647	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6947429	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6947866	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6948191	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6948501	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6966246	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs740510	0.95[CEU][hapmap];0.83[CHB][hapmap];0.82[JPT][hapmap];0.85[EUR][1000 genomes]
rs7459210	0.88[CEU][hapmap]
rs7797301	0.90[CEU][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7801100	0.88[EUR][1000 genomes]
rs887014	0.91[CEU][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs887015	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021180	chr7:39424988-39642261	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1026951	chr7:39429036-39642261	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv966782	chr7:39454992-39581886	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1018430	chr7:39455497-39643569	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats 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	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39462600-39470800	Weak transcription	Fetal Muscle Leg	muscle
2	chr7:39466600-39467600	Weak transcription	HSMM	muscle
3	chr7:39467200-39468400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr7:39467400-39468400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr7:39467400-39468400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr7:39467400-39468400	Enhancers	Muscle Satellite Cultured Cells	--
7	chr7:39467400-39468400	Enhancers	HMEC	breast
8	chr7:39467400-39468600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr7:39467400-39469400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived

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