Variant report

Variant	rs35285868
Chromosome Location	chr3:52477242-52477243
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:52467987..52470484-chr3:52476648..52478461,2	K562	blood:
2	chr3:52475844..52477780-chr3:52570029..52571892,2	MCF-7	breast:
3	chr3:52468021..52470813-chr3:52473930..52477300,4	MCF-7	breast:
4	chr3:52310738..52313208-chr3:52476812..52479185,3	K562	blood:
5	chr3:52310738..52312767-chr3:52476812..52478941,2	K562	blood:

Variant related genes	Relation type
ENSG00000164091	Chromatin interaction
ENSG00000168273	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs13064343	1.00[AMR][1000 genomes]
rs35812429	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71297393	1.00[EUR][1000 genomes]
rs71297399	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876789	chr3:52247110-52575831	Flanking Active TSS Bivalent Enhancer Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
2	nsv984542	chr3:52285682-52516115	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	94 gene(s)	inside rSNPs	diseases
3	nsv834696	chr3:52317478-52479537	Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	45 gene(s)	inside rSNPs	diseases
4	nsv834697	chr3:52400578-52579417	Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
5	nsv876792	chr3:52430526-52575831	Flanking Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
6	nsv876793	chr3:52450043-52584787	Flanking Active TSS Strong transcription Active TSS Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
7	nsv590303	chr3:52469785-52478428	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52450200-52478400	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr3:52464600-52477400	Weak transcription	Brain Cingulate Gyrus	brain
3	chr3:52467400-52477600	Weak transcription	HUVEC	blood vessel
4	chr3:52468600-52477600	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr3:52469000-52478200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr3:52470800-52484200	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr3:52471400-52478000	Weak transcription	Right Atrium	heart
8	chr3:52472200-52478200	Weak transcription	Gastric	stomach
9	chr3:52472200-52478600	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr3:52472600-52478000	Weak transcription	Esophagus	oesophagus
11	chr3:52472600-52478400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr3:52473600-52477600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr3:52475200-52478400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr3:52475800-52478800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr3:52476000-52477400	Enhancers	Fetal Muscle Leg	muscle
16	chr3:52476200-52479400	Active TSS	Brain Anterior Caudate	brain
17	chr3:52476400-52478600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr3:52476600-52477400	Enhancers	HepG2	liver
19	chr3:52476600-52478200	Active TSS	Right Ventricle	heart
20	chr3:52476600-52479600	Flanking Active TSS	Adipose Nuclei	Adipose
21	chr3:52476800-52477400	Active TSS	Lung	lung
22	chr3:52476800-52477800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr3:52476800-52478000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr3:52476800-52478200	Active TSS	Spleen	Spleen
25	chr3:52476800-52478400	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr3:52476800-52478600	Active TSS	Stomach Smooth Muscle	stomach
27	chr3:52476800-52479200	Active TSS	Left Ventricle	heart
28	chr3:52476800-52479600	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
29	chr3:52477000-52477600	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr3:52477000-52478000	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
31	chr3:52477200-52478000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
32	chr3:52477200-52478400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
33	chr3:52477200-52478400	Weak transcription	Colonic Mucosa	Colon
34	chr3:52477200-52479200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr3:52477200-52479200	Flanking Active TSS	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links