Variant report

Variant	rs6442010
Chromosome Location	chr3:46669500-46669501
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11130098	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11130100	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11709020	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11709936	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11710264	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11719679	0.83[CEU][hapmap]
rs12330414	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12491236	0.82[CEU][hapmap]
rs12491294	0.83[CEU][hapmap]
rs13319345	0.88[ASN][1000 genomes]
rs1402148	0.82[EUR][1000 genomes]
rs1520487	0.96[ASN][1000 genomes]
rs1520488	0.82[EUR][1000 genomes]
rs1520489	0.82[EUR][1000 genomes]
rs1607737	0.82[EUR][1000 genomes]
rs2385858	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2891885	0.88[ASN][1000 genomes]
rs3796371	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4234464	0.82[EUR][1000 genomes]
rs4683256	0.81[EUR][1000 genomes]
rs6442011	0.82[EUR][1000 genomes]
rs6442012	0.83[EUR][1000 genomes]
rs6774048	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6804112	0.86[EUR][1000 genomes]
rs6805749	0.90[ASN][1000 genomes]
rs6808214	0.82[EUR][1000 genomes]
rs7610008	0.92[ASN][1000 genomes]
rs7633770	0.81[CEU][hapmap];0.85[EUR][1000 genomes]
rs7644072	0.82[EUR][1000 genomes]
rs877680	0.82[CEU][hapmap]
rs877681	0.83[CEU][hapmap]
rs950190	0.82[EUR][1000 genomes]
rs9845998	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013306	chr3:46469014-46698538	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv876738	chr3:46639048-46680063	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1007449	chr3:46652343-46986578	Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
4	nsv536554	chr3:46652343-46986578	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
5	nsv876739	chr3:46656980-46744966	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
6	nsv876740	chr3:46656980-46748453	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
7	nsv876741	chr3:46663372-46763839	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46651600-46671200	Weak transcription	Right Atrium	heart
2	chr3:46661600-46670200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:46661800-46670200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr3:46662200-46670400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr3:46666600-46670800	Enhancers	Fetal Muscle Leg	muscle
6	chr3:46667000-46669800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr3:46667000-46669800	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr3:46667000-46670000	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr3:46667000-46670000	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr3:46667000-46670000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr3:46667000-46670000	Weak transcription	Brain Angular Gyrus	brain
12	chr3:46667000-46670000	Weak transcription	Brain Cingulate Gyrus	brain
13	chr3:46667200-46669800	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr3:46667200-46669800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr3:46667200-46670000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr3:46667600-46669800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr3:46667600-46671200	Weak transcription	Left Ventricle	heart
18	chr3:46667800-46671200	Enhancers	Fetal Stomach	stomach
19	chr3:46668000-46672400	Enhancers	Placenta	Placenta
20	chr3:46668800-46670200	Weak transcription	Fetal Kidney	kidney
21	chr3:46668800-46670800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr3:46668800-46671200	Enhancers	Fetal Muscle Trunk	muscle
23	chr3:46668800-46672200	Enhancers	Spleen	Spleen
24	chr3:46669000-46671200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr3:46669200-46670000	Weak transcription	Colonic Mucosa	Colon
26	chr3:46669200-46670200	Weak transcription	Fetal Intestine Large	intestine
27	chr3:46669200-46670200	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr3:46669200-46670200	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr3:46669200-46670600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr3:46669200-46670600	Weak transcription	Lung	lung
31	chr3:46669400-46669800	Weak transcription	Fetal Intestine Small	intestine
32	chr3:46669400-46669800	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr3:46669400-46670800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
34	chr3:46669400-46671200	Enhancers	Fetal Thymus	thymus

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