Variant report

Variant	rs9884482
Chromosome Location	chr4:106081636-106081637
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:106076927..106079017-chr4:106080809..106083269,2	K562	blood:
2	chr4:106080873..106083854-chr4:106094011..106096644,2	MCF-7	breast:
3	chr4:106079358..106082309-chr4:106085519..106087044,2	MCF-7	breast:
4	chr4:106070265..106072695-chr4:106079640..106082370,2	K562	blood:
5	chr4:106067354..106070095-chr4:106080094..106083078,3	K562	blood:

Variant related genes	Relation type
ENSG00000168769	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10010281	0.80[YRI][hapmap]
rs10014102	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10022109	0.85[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.96[ASN][1000 genomes]
rs12641113	0.97[ASN][1000 genomes]
rs12643257	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12645165	0.92[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12647922	0.84[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.88[ASN][1000 genomes]
rs1391440	0.87[JPT][hapmap]
rs17583558	0.81[CEU][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17617028	0.80[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.88[ASN][1000 genomes]
rs2189234	0.84[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2285720	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28493806	0.83[EUR][1000 genomes]
rs2903386	0.83[CEU][hapmap];0.88[EUR][1000 genomes]
rs62331150	0.84[ASN][1000 genomes]
rs62331151	0.95[ASN][1000 genomes]
rs974801	0.88[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9790517	0.94[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.97[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	nsv461609	chr4:105869548-106366209	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv470063	chr4:105869548-106366209	Transcr. at gene 5' and 3' Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv595007	chr4:105869548-106366209	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv830025	chr4:105988876-106137946	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106069400-106083200	Weak transcription	Pancreas	Pancrea
2	chr4:106069400-106087600	Weak transcription	Lung	lung
3	chr4:106069400-106114200	Weak transcription	Esophagus	oesophagus
4	chr4:106069600-106102400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr4:106069800-106101000	Weak transcription	HSMM	muscle
6	chr4:106069800-106101800	Weak transcription	Fetal Muscle Trunk	muscle
7	chr4:106070400-106107800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr4:106070400-106111600	Weak transcription	Placenta	Placenta
9	chr4:106071000-106100800	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr4:106071200-106083400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr4:106071800-106082400	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr4:106071800-106084400	Weak transcription	Colon Smooth Muscle	Colon
13	chr4:106072000-106082600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr4:106072000-106083200	Weak transcription	Brain Substantia Nigra	brain
15	chr4:106072000-106083200	Weak transcription	Fetal Brain Female	brain
16	chr4:106072000-106083400	Weak transcription	HSMMtube	muscle
17	chr4:106072600-106083000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr4:106072600-106100600	Weak transcription	Adipose Nuclei	Adipose
19	chr4:106076000-106084400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr4:106076200-106082000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr4:106076200-106083200	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr4:106076200-106089200	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr4:106076200-106092800	Weak transcription	Psoas Muscle	Psoas
24	chr4:106076200-106093000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr4:106076800-106082800	Weak transcription	Primary T cells from cord blood	blood
26	chr4:106076800-106083200	Weak transcription	Brain Hippocampus Middle	brain
27	chr4:106077000-106100800	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr4:106077000-106112000	Weak transcription	Aorta	Aorta
29	chr4:106077200-106082800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr4:106077200-106083000	Weak transcription	Fetal Heart	heart
31	chr4:106077600-106083200	Weak transcription	Brain Germinal Matrix	brain
32	chr4:106078000-106083000	Weak transcription	Pancreatic Islets	Pancreatic Islet
33	chr4:106078000-106083200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr4:106078000-106083400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr4:106078000-106092200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
36	chr4:106078000-106112800	Weak transcription	Fetal Kidney	kidney
37	chr4:106080200-106083200	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr4:106080200-106085200	Weak transcription	Primary B cells from cord blood	blood
39	chr4:106080200-106091400	Weak transcription	Primary B cells from peripheral blood	blood
40	chr4:106080400-106083200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr4:106080400-106083200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr4:106080400-106083200	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr4:106080400-106083400	Weak transcription	Fetal Lung	lung
44	chr4:106080400-106083600	Weak transcription	Primary neutrophils fromperipheralblood	blood
45	chr4:106080400-106088800	Weak transcription	Primary hematopoietic stem cells	blood
46	chr4:106080400-106088800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
47	chr4:106080600-106082800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr4:106080600-106086400	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr4:106080600-106101800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr4:106080600-106102800	Weak transcription	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links