Variant report

Variant	rs11089065
Chromosome Location	chr21:45006383-45006384
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr21:45006194..45009142-chr21:45021772..45023850,3	MCF-7	breast:
2	chr21:44931738..44933957-chr21:45005070..45008681,4	MCF-7	breast:
3	chr21:45005604..45007811-chr21:45030159..45032407,3	MCF-7	breast:
4	chr21:44932097..44937071-chr21:45004878..45007611,5	MCF-7	breast:
5	chr21:44990852..44992560-chr21:45004993..45006854,2	K562	blood:
6	chr21:44940715..44942547-chr21:45006167..45008707,3	MCF-7	breast:
7	chr21:45006048..45008566-chr21:45024329..45026628,2	MCF-7	breast:
8	chr21:45000029..45003162-chr21:45004279..45008488,5	MCF-7	breast:
9	chr21:45005141..45010452-chr21:45028185..45033118,8	MCF-7	breast:
10	chr21:44924283..44926867-chr21:45004236..45006835,2	MCF-7	breast:
11	chr21:44929409..44930980-chr21:45004462..45007751,3	MCF-7	breast:
12	chr21:45005708..45007354-chr21:45034728..45036939,2	MCF-7	breast:

No data

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10483077	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs11908919	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs11909195	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs11909530	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs11909813	0.92[AMR][1000 genomes]
rs11909999	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11910220	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs11910351	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11910352	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11911293	0.85[AFR][1000 genomes]
rs11911483	0.85[AFR][1000 genomes]
rs11911735	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs11911856	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs12106371	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12106423	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12106466	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12626631	0.93[YRI][hapmap]
rs13339951	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17004507	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs17004572	0.85[YRI][hapmap]
rs17004580	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17004581	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs17004582	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17004585	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs17004586	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs17004587	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs17004589	0.92[AMR][1000 genomes]
rs17004590	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs2117981	0.92[YRI][hapmap]
rs59298188	0.93[AMR][1000 genomes]
rs7283618	0.90[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv913873	chr21:44879869-45142427	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv1061539	chr21:44915533-45041824	Weak transcription ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
3	nsv1067171	chr21:44921187-45039471	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
4	nsv521700	chr21:44925334-45041790	Enhancers Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
5	nsv470903	chr21:44925334-45061501	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
6	nsv459289	chr21:44925334-45064600	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
7	nsv587690	chr21:44925334-45064600	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
8	nsv1065359	chr21:44967209-45029878	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
9	nsv3537	chr21:44967340-45013104	Flanking Active TSS Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv834106	chr21:44992387-45109489	Strong transcription Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:44995000-45024200	Weak transcription	Fetal Brain Male	brain
2	chr21:45004600-45007200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr21:45004600-45014200	Enhancers	HepG2	liver
4	chr21:45005000-45007400	Enhancers	HUVEC	blood vessel
5	chr21:45005000-45007800	Enhancers	NHEK	skin
6	chr21:45005000-45008000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr21:45005000-45008000	Enhancers	HSMM	muscle
8	chr21:45005000-45011800	Enhancers	HMEC	breast
9	chr21:45005200-45006400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr21:45005200-45007200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr21:45005200-45008000	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr21:45005200-45008200	Enhancers	HSMMtube	muscle
13	chr21:45005400-45006400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr21:45005400-45006800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr21:45005400-45006800	Enhancers	Fetal Lung	lung
16	chr21:45005400-45006800	Enhancers	Osteobl	bone
17	chr21:45005400-45007200	Enhancers	NH-A	brain
18	chr21:45005400-45008000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr21:45005400-45011800	Enhancers	Fetal Intestine Small	intestine
20	chr21:45005600-45006600	Enhancers	Liver	Liver
21	chr21:45005600-45006600	Enhancers	Fetal Stomach	stomach
22	chr21:45005600-45006800	Enhancers	Colon Smooth Muscle	Colon
23	chr21:45005600-45010400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr21:45005800-45006400	Enhancers	HUES48 Cell Line	embryonic stem cell
25	chr21:45005800-45006400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr21:45005800-45006400	Enhancers	Cortex derived primary cultured neurospheres	brain
27	chr21:45005800-45006400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
28	chr21:45005800-45006600	Enhancers	ES-I3 Cell Line	embryonic stem cell
29	chr21:45005800-45006600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr21:45005800-45006600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr21:45005800-45006600	Enhancers	HUES6 Cell Line	embryonic stem cell
32	chr21:45005800-45006600	Enhancers	iPS-18 Cell Line	embryonic stem cell
33	chr21:45005800-45006600	Enhancers	iPS-20b Cell Line	embryonic stem cell
34	chr21:45005800-45006600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
35	chr21:45005800-45006600	Enhancers	Primary hematopoietic stem cells	blood
36	chr21:45005800-45006600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr21:45005800-45006600	Enhancers	Fetal Kidney	kidney
38	chr21:45005800-45006600	Enhancers	Stomach Mucosa	stomach
39	chr21:45005800-45006800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr21:45005800-45006800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr21:45005800-45006800	Enhancers	HUES64 Cell Line	embryonic stem cell
42	chr21:45005800-45007000	Enhancers	NHLF	lung
43	chr21:45005800-45007200	Enhancers	Duodenum Smooth Muscle	Duodenum
44	chr21:45005800-45007200	Enhancers	Placenta Amnion	Placenta Amnion
45	chr21:45006000-45006400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr21:45006000-45006600	Enhancers	Brain Hippocampus Middle	brain
47	chr21:45006000-45006600	Active TSS	A549	lung
48	chr21:45006000-45008600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr21:45006000-45008600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr21:45006000-45010400	Enhancers	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links