Variant report

Variant	rs1875460
Chromosome Location	chr3:143063734-143063735
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs16853409	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs16853413	0.83[JPT][hapmap]
rs16853439	1.00[CHB][hapmap];0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs16853457	1.00[CHB][hapmap];0.89[JPT][hapmap];0.92[ASN][1000 genomes]
rs59195456	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6779058	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs73144721	1.00[ASN][1000 genomes]
rs73144722	0.94[ASN][1000 genomes]
rs7641069	0.84[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	esv2757894	chr3:142992697-143285979	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv2759184	chr3:142992697-143285979	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv877564	chr3:143059952-143116883	Strong transcription Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143061400-143064000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr3:143061600-143064200	Enhancers	Dnd41	blood
3	chr3:143061800-143066800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr3:143062200-143063800	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr3:143062400-143064400	Enhancers	Primary T cells from cord blood	blood
6	chr3:143062400-143065800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr3:143062400-143066400	Weak transcription	Fetal Thymus	thymus
8	chr3:143062600-143064200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr3:143063200-143066400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr3:143063400-143064000	Enhancers	Primary hematopoietic stem cells short term culture	blood
11	chr3:143063600-143064000	Flanking Active TSS	HUVEC	blood vessel
12	chr3:143063600-143064400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
13	chr3:143063600-143076400	Weak transcription	Brain Anterior Caudate	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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