Variant report

Variant	rs2235719
Chromosome Location	chr6:38840601-38840602
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs12527996	0.81[ASN][1000 genomes]
rs4714192	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs6921238	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs9357283	0.95[CHB][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs9357284	1.00[CHB][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs9380784	0.95[CHB][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs9380785	0.80[CHB][hapmap]
rs9394546	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[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	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv830643	chr6:38726675-38905589	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1028088	chr6:38821047-39163549	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers 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 miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv538205	chr6:38821047-39163549	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38839600-38840800	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr6:38839800-38841200	Enhancers	Primary T helper cells PMA-I stimulated	--
3	chr6:38840000-38841200	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr6:38840000-38841200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr6:38840000-38841200	Enhancers	Primary T helper naive cells from peripheral blood	blood
6	chr6:38840200-38841200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
7	chr6:38840200-38841200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr6:38840200-38843400	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr6:38840200-38845400	Enhancers	Fetal Thymus	thymus
10	chr6:38840400-38841200	Enhancers	Thymus	Thymus
11	chr6:38840400-38841200	Enhancers	Dnd41	blood
12	chr6:38840600-38841000	Enhancers	Primary T cells from cord blood	blood

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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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