Variant report

Variant	rs17686709
Chromosome Location	chr7:39390253-39390254
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs12112401	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs12113628	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs17619378	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17619492	1.00[JPT][hapmap]
rs17619548	0.88[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];0.88[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs17686527	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17686557	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17686795	0.95[CEU][hapmap];1.00[JPT][hapmap]
rs17686832	0.86[ASW][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.84[MEX][hapmap];0.93[MKK][hapmap];0.93[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs34744674	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35380149	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41402647	0.88[ASN][1000 genomes]
rs4370441	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4720320	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4723862	0.87[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];0.82[MEX][hapmap];0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs6946515	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.94[TSI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6965821	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.82[MKK][hapmap];0.94[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs71536641	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][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	nsv1015572	chr7:39185895-39413053	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv538821	chr7:39185895-39413053	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv887969	chr7:39265429-39391875	Enhancers Weak transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39383400-39391800	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr7:39383600-39391200	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr7:39389600-39391200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr7:39389600-39391200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr7:39389600-39392400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr7:39389600-39392600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr7:39389600-39392800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr7:39389600-39392800	Weak transcription	Brain Anterior Caudate	brain
9	chr7:39389600-39393200	Weak transcription	Fetal Muscle Trunk	muscle
10	chr7:39389600-39393600	Weak transcription	Brain Angular Gyrus	brain
11	chr7:39389600-39395000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr7:39389600-39395000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr7:39389800-39391000	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr7:39389800-39391400	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr7:39389800-39393600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr7:39390200-39393400	Enhancers	iPS-15b Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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