Variant report

Variant	rs73007896
Chromosome Location	chr11:120823269-120823270
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:120381510..120382946-chr11:120823225..120824156,6	K562	blood:
2	chr11:120492939..120493692-chr11:120823234..120824125,2	MCF-7	breast:
3	chr11:120627379..120628331-chr11:120823222..120824224,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TRIM29-8	chr11:120823250-120825818	ucscGeneNc_uc001pxw_1

Variant related genes	Relation type
ENSG00000149403	Chromatin interaction
ENSG00000204306	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10892647	0.84[ASN][1000 genomes]
rs10892648	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10892651	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11218066	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11218068	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11218069	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11218070	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11218071	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11218072	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11218074	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11218075	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11218080	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12361041	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12419730	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17124570	0.92[ASN][1000 genomes]
rs17124575	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2186621	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs35024210	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3781816	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3781817	0.98[ASN][1000 genomes]
rs4935757	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4936565	0.83[ASN][1000 genomes]
rs4936566	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4936568	0.88[EUR][1000 genomes]
rs73007893	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7926317	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7939524	0.89[AMR][1000 genomes];0.90[ASN][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	nsv1042469	chr11:120799275-120846585	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv541183	chr11:120799275-120846585	Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:120822200-120823400	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr11:120822400-120825000	Enhancers	Brain Germinal Matrix	brain
3	chr11:120822600-120823600	Enhancers	Right Ventricle	heart
4	chr11:120822600-120823800	Enhancers	Primary hematopoietic stem cells	blood
5	chr11:120822600-120824000	Enhancers	Brain Cingulate Gyrus	brain
6	chr11:120822600-120824800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr11:120822800-120823600	Bivalent Enhancer	Fetal Muscle Leg	muscle
8	chr11:120822800-120824200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr11:120822800-120824400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr11:120822800-120824600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
11	chr11:120822800-120825400	Enhancers	Fetal Heart	heart
12	chr11:120823000-120823400	Enhancers	Esophagus	oesophagus
13	chr11:120823000-120823600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr11:120823000-120823600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr11:120823000-120823600	Enhancers	Brain Substantia Nigra	brain
16	chr11:120823000-120824000	Enhancers	Primary B cells from peripheral blood	blood
17	chr11:120823000-120824000	Enhancers	Left Ventricle	heart
18	chr11:120823200-120823400	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
19	chr11:120823200-120823400	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
20	chr11:120823200-120823400	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
21	chr11:120823200-120823400	Bivalent/Poised TSS	Primary T helper cells PMA-I stimulated	--
22	chr11:120823200-120823400	Flanking Bivalent TSS/Enh	Primary T helper cells fromperipheralblood	blood
23	chr11:120823200-120823400	Bivalent Enhancer	Muscle Satellite Cultured Cells	--
24	chr11:120823200-120823400	Bivalent Enhancer	Primary mononuclear cells fromperipheralblood	Blood
25	chr11:120823200-120823400	Flanking Active TSS	Brain Angular Gyrus	brain
26	chr11:120823200-120823400	Bivalent Enhancer	Fetal Intestine Small	intestine
27	chr11:120823200-120823400	Bivalent Enhancer	Stomach Smooth Muscle	stomach
28	chr11:120823200-120823400	Active TSS	HepG2	liver
29	chr11:120823200-120823400	Flanking Active TSS	HSMMtube	muscle
30	chr11:120823200-120823400	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
31	chr11:120823200-120823600	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr11:120823200-120823600	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
33	chr11:120823200-120823600	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
34	chr11:120823200-120823600	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
35	chr11:120823200-120823600	Enhancers	Primary T helper naive cells from peripheral blood	blood
36	chr11:120823200-120823600	Flanking Bivalent TSS/Enh	Primary Natural Killer cells fromperipheralblood	blood
37	chr11:120823200-120823600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
38	chr11:120823200-120823600	Flanking Bivalent TSS/Enh	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr11:120823200-120823600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr11:120823200-120823600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr11:120823200-120823600	Enhancers	Liver	Liver
42	chr11:120823200-120823600	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
43	chr11:120823200-120823600	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
44	chr11:120823200-120823600	Active TSS	Colonic Mucosa	Colon
45	chr11:120823200-120823600	Flanking Active TSS	Duodenum Mucosa	Duodenum
46	chr11:120823200-120823600	Enhancers	Duodenum Smooth Muscle	Duodenum
47	chr11:120823200-120823600	Enhancers	Fetal Intestine Large	intestine
48	chr11:120823200-120823600	Bivalent Enhancer	Placenta	Placenta
49	chr11:120823200-120823600	Bivalent Enhancer	Fetal Stomach	stomach
50	chr11:120823200-120823600	Enhancers	Lung	lung

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