Variant report

Variant	rs10029478
Chromosome Location	chr4:142043695-142043696
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10008705	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10016770	0.89[ASN][1000 genomes]
rs10029462	0.88[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12509440	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs13435113	0.81[YRI][hapmap]
rs13435125	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1395668	0.91[ASN][1000 genomes]
rs1395669	0.91[ASN][1000 genomes]
rs1873370	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2321862	0.91[ASN][1000 genomes]
rs28417061	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28438876	0.87[AFR][1000 genomes]
rs28457672	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28465245	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28628800	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28667926	0.87[ASN][1000 genomes]
rs4267811	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4386678	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4613644	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs4629541	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4956512	0.89[ASN][1000 genomes]
rs4956513	0.91[ASN][1000 genomes]
rs4956514	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4956515	1.00[ASN][1000 genomes]
rs4956516	1.00[ASN][1000 genomes]
rs4956517	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6537030	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6813119	0.89[ASW][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6817313	0.91[ASN][1000 genomes]
rs6826231	0.91[ASN][1000 genomes]
rs6831578	0.91[ASN][1000 genomes]
rs6853785	0.89[ASN][1000 genomes]
rs756170	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7658695	0.91[ASN][1000 genomes]
rs7669929	0.91[ASN][1000 genomes]
rs9790672	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs9790673	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880167	chr4:141616979-142092124	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription 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:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:142038600-142052600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr4:142038800-142044400	Enhancers	Fetal Heart	heart
3	chr4:142039000-142049200	Weak transcription	Fetal Brain Female	brain
4	chr4:142039400-142051800	Weak transcription	Aorta	Aorta
5	chr4:142039800-142045000	Weak transcription	Fetal Muscle Trunk	muscle
6	chr4:142039800-142045200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr4:142039800-142045200	Weak transcription	Fetal Muscle Leg	muscle
8	chr4:142041000-142047600	Weak transcription	Spleen	Spleen
9	chr4:142041000-142048600	Weak transcription	Adipose Nuclei	Adipose
10	chr4:142041000-142052200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr4:142041800-142043800	Enhancers	Left Ventricle	heart
12	chr4:142042200-142047400	Weak transcription	Psoas Muscle	Psoas
13	chr4:142042200-142048200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr4:142042600-142045200	Weak transcription	Ovary	ovary
15	chr4:142042600-142048600	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr4:142042800-142046400	Weak transcription	Rectal Smooth Muscle	rectum
17	chr4:142042800-142047400	Weak transcription	Stomach Smooth Muscle	stomach
18	chr4:142043000-142043800	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr4:142043200-142043800	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr4:142043200-142043800	Enhancers	iPS-20b Cell Line	embryonic stem cell
21	chr4:142043200-142043800	Enhancers	Fetal Lung	lung
22	chr4:142043200-142044000	Enhancers	Colon Smooth Muscle	Colon
23	chr4:142043400-142043800	Enhancers	H1 Cell Line	embryonic stem cell
24	chr4:142043400-142043800	Enhancers	iPS-15b Cell Line	embryonic stem cell
25	chr4:142043400-142044200	Enhancers	HUES64 Cell Line	embryonic stem cell
26	chr4:142043400-142047200	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr4:142043600-142043800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr4:142043600-142045400	Weak transcription	Right Atrium	heart
29	chr4:142043600-142047000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr4:142043600-142047400	Weak transcription	Right Ventricle	heart
31	chr4:142043600-142047600	Weak transcription	Fetal Stomach	stomach
32	chr4:142043600-142051800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

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