Variant report

Variant	rs1954409
Chromosome Location	chr6:139967414-139967415
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs17069028	1.00[EUR][1000 genomes]
rs55771622	1.00[EUR][1000 genomes]
rs56735760	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57662306	1.00[EUR][1000 genomes]
rs60045683	1.00[EUR][1000 genomes]
rs60089334	1.00[EUR][1000 genomes]
rs60819778	1.00[EUR][1000 genomes]
rs61155453	1.00[EUR][1000 genomes]
rs6899947	1.00[EUR][1000 genomes]
rs73554035	1.00[EUR][1000 genomes]
rs73554049	1.00[EUR][1000 genomes]
rs73570547	1.00[EUR][1000 genomes]
rs73775568	1.00[EUR][1000 genomes]
rs9495553	1.00[EUR][1000 genomes]
rs9495555	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv516840	chr6:139960833-140053704	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island 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	chr6:139957200-139976000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:139962200-139969200	Enhancers	K562	blood
3	chr6:139963600-139969200	Weak transcription	Primary hematopoietic stem cells	blood
4	chr6:139966200-139968800	Weak transcription	HSMM	muscle
5	chr6:139966200-139969400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr6:139966200-139974200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr6:139966400-139974000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr6:139966800-139968000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:139966800-139968000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr6:139966800-139969200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr6:139966800-139974200	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr6:139967000-139969200	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr6:139967200-139969200	Weak transcription	Primary monocytes fromperipheralblood	blood
14	chr6:139967200-139969200	Weak transcription	Fetal Thymus	thymus
15	chr6:139967200-139969200	Weak transcription	HSMMtube	muscle
16	chr6:139967200-139969400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr6:139967200-139969600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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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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