Variant report

Variant	rs780344
Chromosome Location	chr3:59765651-59765652
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1352020	0.87[EUR][1000 genomes]
rs517711	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs575388	0.82[EUR][1000 genomes]
rs629627	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs673870	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs780346	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs780347	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs780348	0.83[EUR][1000 genomes]
rs780359	0.87[EUR][1000 genomes]
rs780360	0.87[EUR][1000 genomes]
rs780361	0.87[EUR][1000 genomes]
rs780362	0.87[EUR][1000 genomes]
rs780371	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs780372	0.86[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	nsv1014601	chr3:59666609-59888166	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
2	nsv1003387	chr3:59756364-59831340	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv460562	chr3:59760118-59826778	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv590381	chr3:59760118-59826778	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv590382	chr3:59763809-59793062	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59760400-59776000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr3:59761000-59772400	Weak transcription	Fetal Brain Male	brain
3	chr3:59761200-59768200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr3:59762000-59770000	Weak transcription	Fetal Thymus	thymus
5	chr3:59762400-59769600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr3:59763400-59769400	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr3:59763600-59768800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr3:59764000-59765800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr3:59764200-59769400	Weak transcription	GM12878-XiMat	blood
10	chr3:59764200-59770000	Weak transcription	Primary T cells from cord blood	blood
11	chr3:59764400-59769600	Weak transcription	Primary B cells from peripheral blood	blood
12	chr3:59764600-59767000	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr3:59764600-59769400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr3:59765200-59769200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr3:59765200-59769600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr3:59765400-59767800	Strong transcription	Dnd41	blood
17	chr3:59765600-59766200	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr3:59765600-59770000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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Input of quick search could be:

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

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