Variant report

Variant	rs17421738
Chromosome Location	chr3:161275848-161275849
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1515736	0.81[EUR][1000 genomes]
rs16832548	1.00[ASW][hapmap]
rs17421877	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17421926	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17478991	0.82[AMR][1000 genomes]
rs17479046	0.93[CEU][hapmap]
rs59111786	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6780945	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6788534	0.92[EUR][1000 genomes]
rs6797876	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73164190	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73166012	0.82[AMR][1000 genomes]
rs73166018	0.92[EUR][1000 genomes]
rs73166030	0.92[EUR][1000 genomes]
rs73166056	0.82[AMR][1000 genomes]
rs73166066	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73166074	0.86[AMR][1000 genomes]
rs73166075	0.86[AMR][1000 genomes]
rs73168016	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533237	chr3:161019834-161804660	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	91 gene(s)	inside rSNPs	diseases
2	nsv829773	chr3:161150422-161315189	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv829774	chr3:161229405-161386919	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv2422309	chr3:161242389-161425932	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv877711	chr3:161275848-161486665	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161269200-161276800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr3:161271400-161276000	Weak transcription	Fetal Muscle Leg	muscle
3	chr3:161272200-161276800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr3:161272800-161279600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:161274600-161276400	Enhancers	Fetal Stomach	stomach
6	chr3:161275200-161277800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr3:161275400-161276000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr3:161275400-161276400	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr3:161275600-161276400	Enhancers	Fetal Muscle Trunk	muscle
10	chr3:161275600-161276600	Enhancers	Breast Myoepithelial Primary Cells	Breast
11	chr3:161275600-161276600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr3:161275600-161276600	Flanking Active TSS	Dnd41	blood
13	chr3:161275800-161276600	Enhancers	Fetal Heart	heart
14	chr3:161275800-161277800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr3:161275800-161277800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr3:161275800-161277800	Weak transcription	Brain Germinal Matrix	brain
17	chr3:161275800-161278200	Enhancers	NH-A	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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