Variant report

Variant	rs3860500
Chromosome Location	chr3:133529539-133529540
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:133523328..133525267-chr3:133529249..133532239,3	MCF-7	breast:
2	chr3:133523551..133526872-chr3:133527016..133531055,8	MCF-7	breast:
3	chr3:133523642..133526680-chr3:133527233..133530883,4	K562	blood:
4	chr3:133522634..133526763-chr3:133529104..133532905,8	K562	blood:

Variant related genes	Relation type
ENSG00000144867	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs41295778	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6778545	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6806081	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7620678	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv877506	chr3:133423473-133569777	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv933605	chr3:133425907-133680641	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer 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 target site	12 gene(s)	inside rSNPs	diseases
3	nsv829729	chr3:133444871-133620387	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers 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	9 gene(s)	inside rSNPs	diseases
4	nsv4018	chr3:133485867-133530668	Weak transcription Genic enhancers Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133525400-133529800	Weak transcription	Lung	lung
2	chr3:133525400-133532800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr3:133525400-133532800	Weak transcription	Esophagus	oesophagus
4	chr3:133525400-133533600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr3:133525400-133533600	Weak transcription	Spleen	Spleen
6	chr3:133525400-133539000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:133525600-133529800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr3:133525600-133529800	Weak transcription	Aorta	Aorta
9	chr3:133525600-133529800	Weak transcription	Thymus	Thymus
10	chr3:133525600-133531600	Weak transcription	Colonic Mucosa	Colon
11	chr3:133525600-133532800	Weak transcription	Ovary	ovary
12	chr3:133525600-133533600	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr3:133525600-133533600	Weak transcription	Pancreas	Pancrea
14	chr3:133525600-133533800	Weak transcription	Fetal Kidney	kidney
15	chr3:133525600-133533800	Weak transcription	Psoas Muscle	Psoas
16	chr3:133525600-133534200	Weak transcription	Right Ventricle	heart
17	chr3:133525600-133534400	Weak transcription	Brain Substantia Nigra	brain
18	chr3:133525600-133538400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr3:133525600-133539000	Weak transcription	Gastric	stomach
20	chr3:133525600-133539200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr3:133525600-133541000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr3:133525800-133529600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr3:133525800-133529600	Weak transcription	Fetal Brain Female	brain
24	chr3:133525800-133529800	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr3:133525800-133531400	Weak transcription	Fetal Heart	heart
26	chr3:133525800-133531800	Weak transcription	HSMMtube	muscle
27	chr3:133525800-133533600	Weak transcription	Brain Hippocampus Middle	brain
28	chr3:133525800-133534000	Weak transcription	Rectal Smooth Muscle	rectum
29	chr3:133525800-133536400	Weak transcription	Colon Smooth Muscle	Colon
30	chr3:133525800-133538800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr3:133525800-133538800	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr3:133525800-133538800	Weak transcription	Stomach Mucosa	stomach
33	chr3:133525800-133541000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
34	chr3:133526000-133529600	Weak transcription	K562	blood
35	chr3:133526000-133531600	Weak transcription	Adipose Nuclei	Adipose
36	chr3:133526200-133531000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr3:133526200-133537400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr3:133526200-133540600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr3:133526200-133543400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr3:133526400-133529800	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr3:133526400-133530200	Strong transcription	Muscle Satellite Cultured Cells	--
42	chr3:133526400-133532200	Strong transcription	Primary B cells from cord blood	blood
43	chr3:133526400-133536800	Strong transcription	HUES6 Cell Line	embryonic stem cell
44	chr3:133526400-133537200	Strong transcription	HUES48 Cell Line	embryonic stem cell
45	chr3:133526400-133537400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
46	chr3:133526400-133540200	Strong transcription	HUES64 Cell Line	embryonic stem cell
47	chr3:133526400-133543800	Strong transcription	Primary monocytes fromperipheralblood	blood
48	chr3:133526400-133544000	Strong transcription	Primary T cells fromperipheralblood	blood
49	chr3:133526400-133544000	Strong transcription	Monocytes-CD14+_RO01746	blood
50	chr3:133526600-133530200	Strong transcription	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links