Variant report

Variant	rs16824574
Chromosome Location	chr3:154836005-154836006
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs16824591	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3821719	0.81[YRI][hapmap]
rs7633703	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1000140	chr3:154336261-154905740	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv534289	chr3:154535584-154987166	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv532663	chr3:154561578-154960353	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv999994	chr3:154579254-155175303	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
5	nsv532664	chr3:154588346-155162615	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
6	nsv877677	chr3:154832222-154901205	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:154819400-154844400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr3:154820600-154836600	Weak transcription	NHLF	lung
3	chr3:154824200-154884400	Weak transcription	Psoas Muscle	Psoas
4	chr3:154825800-154836800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr3:154828000-154843000	Weak transcription	Placenta	Placenta
6	chr3:154828200-154867400	Weak transcription	Fetal Lung	lung
7	chr3:154829200-154837000	Weak transcription	Small Intestine	intestine
8	chr3:154829400-154845600	Weak transcription	Fetal Intestine Large	intestine
9	chr3:154830600-154837200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr3:154830800-154848200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:154831400-154844800	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr3:154832800-154837200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr3:154833800-154869800	Weak transcription	Thymus	Thymus
14	chr3:154834200-154836800	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr3:154834400-154837200	Strong transcription	Primary neutrophils fromperipheralblood	blood
16	chr3:154834600-154838200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr3:154834800-154837200	ZNF genes & repeats	Dnd41	blood
18	chr3:154834800-154837200	Strong transcription	NHDF-Ad	bronchial
19	chr3:154835000-154836400	Enhancers	Primary B cells from cord blood	blood
20	chr3:154835200-154837800	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr3:154835400-154837200	Strong transcription	Duodenum Mucosa	Duodenum
22	chr3:154835400-154842600	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr3:154835600-154836200	Enhancers	Primary hematopoietic stem cells	blood
24	chr3:154835600-154837000	Strong transcription	Liver	Liver
25	chr3:154835600-154837200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr3:154835600-154837200	Strong transcription	HSMM	muscle
27	chr3:154835800-154836400	Enhancers	Adipose Nuclei	Adipose
28	chr3:154835800-154837200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr3:154835800-154837200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr3:154835800-154837200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
31	chr3:154836000-154836400	Weak transcription	Fetal Thymus	thymus
32	chr3:154836000-154836600	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr3:154836000-154836800	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr3:154836000-154842600	Weak transcription	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links