Variant report

Variant	rs13149552
Chromosome Location	chr4:158927297-158927298
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:158923730..158926268-chr4:158927220..158929131,2	MCF-7	breast:
2	chr4:158921420..158925394-chr4:158925624..158927441,3	MCF-7	breast:
3	chr4:158927162..158929006-chr4:158931620..158933228,2	MCF-7	breast:

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10018872	1.00[CEU][hapmap]
rs10022190	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10024133	1.00[CEU][hapmap]
rs10461268	0.81[AFR][1000 genomes]
rs10461269	0.87[AFR][1000 genomes]
rs10517689	1.00[CEU][hapmap]
rs11100151	1.00[CEU][hapmap]
rs11731973	1.00[JPT][hapmap];0.87[YRI][hapmap];0.87[AFR][1000 genomes]
rs11938464	1.00[CEU][hapmap]
rs12502811	1.00[CEU][hapmap]
rs12511679	1.00[CEU][hapmap]
rs12511713	0.95[ASN][1000 genomes]
rs13101806	1.00[ASN][1000 genomes]
rs13105388	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13105599	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13119344	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13123367	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13128845	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1320370	1.00[CEU][hapmap]
rs1320371	1.00[CEU][hapmap]
rs17036867	0.86[EUR][1000 genomes]
rs17036927	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2346320	1.00[CEU][hapmap]
rs2346381	1.00[CEU][hapmap]
rs2346776	1.00[CEU][hapmap]
rs2346780	1.00[CEU][hapmap]
rs28717075	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34009182	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34030902	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34131483	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34387852	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34535065	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34735033	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34765608	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35346320	1.00[ASN][1000 genomes]
rs35439222	1.00[ASN][1000 genomes]
rs35465944	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35473373	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35518318	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs36069561	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4389619	1.00[JPT][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes]
rs4391084	1.00[CEU][hapmap]
rs4472184	1.00[CEU][hapmap]
rs4569796	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4582199	1.00[CEU][hapmap]
rs4690893	1.00[CEU][hapmap]
rs4691456	1.00[CEU][hapmap]
rs4691457	1.00[CEU][hapmap]
rs4691462	1.00[CEU][hapmap]
rs4691463	1.00[CEU][hapmap]
rs4691465	1.00[CEU][hapmap]
rs4691467	1.00[CEU][hapmap]
rs5004547	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6536292	1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6812635	1.00[CEU][hapmap]
rs6821598	1.00[CEU][hapmap]
rs6832099	1.00[CEU][hapmap]
rs6846661	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6849902	1.00[CEU][hapmap]
rs6852646	1.00[CEU][hapmap]
rs6855420	1.00[CEU][hapmap]
rs71607171	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7437833	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7664258	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7664738	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7665295	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7671094	1.00[CEU][hapmap]
rs7671501	1.00[CEU][hapmap]
rs7671934	1.00[CEU][hapmap]
rs7687980	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7691126	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7695599	1.00[CEU][hapmap]
rs9991405	0.86[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv993476	chr4:158550643-159202015	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1030124	chr4:158758675-159251140	Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv881288	chr4:158891733-159028080	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:158913800-158928200	Weak transcription	HSMM	muscle
2	chr4:158913800-158930000	Weak transcription	Right Atrium	heart
3	chr4:158922600-158930000	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr4:158922800-158929200	Enhancers	Primary neutrophils fromperipheralblood	blood
5	chr4:158923200-158928400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr4:158923600-158927800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr4:158923800-158929800	Weak transcription	Left Ventricle	heart
8	chr4:158923800-158939400	Weak transcription	HepG2	liver
9	chr4:158924600-158927800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr4:158924800-158927800	Weak transcription	Primary hematopoietic stem cells	blood
11	chr4:158925400-158930200	Enhancers	Rectal Smooth Muscle	rectum
12	chr4:158925600-158927800	Weak transcription	Brain Substantia Nigra	brain
13	chr4:158925600-158928000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr4:158925600-158928000	Enhancers	Adipose Nuclei	Adipose
15	chr4:158925600-158930600	Enhancers	Colon Smooth Muscle	Colon
16	chr4:158925800-158927800	Enhancers	Fetal Stomach	stomach
17	chr4:158925800-158928000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr4:158926000-158930400	Enhancers	HSMMtube	muscle
19	chr4:158926000-158938800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr4:158926200-158928800	Enhancers	Fetal Heart	heart
21	chr4:158926600-158928200	Weak transcription	Stomach Smooth Muscle	stomach
22	chr4:158926600-158931000	Enhancers	HUVEC	blood vessel
23	chr4:158926800-158927800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr4:158927000-158927400	Enhancers	Monocytes-CD14+_RO01746	blood
25	chr4:158927200-158928200	Weak transcription	Ovary	ovary
26	chr4:158927200-158928800	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr4:158927200-158929800	Weak transcription	Fetal Muscle Leg	muscle

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