Variant report

Variant	rs9822066
Chromosome Location	chr3:141598174-141598175
allele	A/G
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:141455466..141460652-chr3:141593125..141598625,15	K562	blood:
2	chr3:141594674..141598943-chr3:141621711..141625603,5	MCF-7	breast:
3	chr3:141455463..141459614-chr3:141593520..141599146,20	K562	blood:
4	chr3:141457377..141459578-chr3:141597906..141599752,2	MCF-7	breast:
5	chr3:141511387..141514014-chr3:141597034..141598647,2	K562	blood:
6	chr3:141452499..141459593-chr3:141591792..141599045,17	MCF-7	breast:
7	chr3:141471164..141473196-chr3:141598108..141600224,2	K562	blood:
8	chr3:141574992..141577884-chr3:141596784..141598377,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000200389	Chromatin interaction
ENSG00000114125	Chromatin interaction
ENSG00000069849	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1073464	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12386355	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13059220	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13061474	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13067998	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13069329	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13082115	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13086153	0.96[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1897139	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35681935	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4260404	0.81[CEU][hapmap];0.81[CHB][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs5013124	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7636902	0.91[YRI][hapmap]
rs8179925	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8179994	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9810380	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9827902	0.90[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9836116	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9850595	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9855878	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9858477	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9873028	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9878540	0.90[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949709	chr3:141295050-142178144	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	nsv1013352	chr3:141541105-141870293	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	esv3333253	chr3:141585303-141602936	Flanking Active TSS Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141593600-141598400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr3:141593800-141598400	Active TSS	H1 Cell Line	embryonic stem cell
3	chr3:141594400-141600400	Active TSS	GM12878-XiMat	blood
4	chr3:141595600-141598400	Active TSS	Right Atrium	heart
5	chr3:141596400-141598200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
6	chr3:141596400-141609400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr3:141596400-141626400	Weak transcription	Pancreas	Pancrea
8	chr3:141596600-141598400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
9	chr3:141596800-141598200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr3:141596800-141598200	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
11	chr3:141597000-141598200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:141597000-141598200	Enhancers	Primary T helper naive cells from peripheral blood	blood
13	chr3:141597000-141598200	Flanking Active TSS	HepG2	liver
14	chr3:141597000-141598200	Flanking Active TSS	HUVEC	blood vessel
15	chr3:141597000-141598400	Enhancers	Primary T cells fromperipheralblood	blood
16	chr3:141597000-141598400	Enhancers	Primary T helper cells fromperipheralblood	blood
17	chr3:141597000-141598400	Enhancers	Left Ventricle	heart
18	chr3:141597000-141598800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
19	chr3:141597000-141600400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr3:141597000-141604600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr3:141597000-141613200	Weak transcription	Placenta	Placenta
22	chr3:141597000-141615800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr3:141597000-141625200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr3:141597000-141646400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr3:141597200-141598200	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
26	chr3:141597200-141598200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr3:141597200-141598200	Flanking Active TSS	Fetal Brain Male	brain
28	chr3:141597200-141598200	Flanking Active TSS	NH-A	brain
29	chr3:141597200-141598400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr3:141597200-141598400	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr3:141597200-141600200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr3:141597200-141600200	Weak transcription	Primary T cells from cord blood	blood
33	chr3:141597200-141625800	Weak transcription	Fetal Muscle Trunk	muscle
34	chr3:141597400-141598200	Enhancers	Primary T killer memory cells from peripheral blood	blood
35	chr3:141597400-141598200	Active TSS	Pancreatic Islets	Pancreatic Islet
36	chr3:141597400-141618800	Weak transcription	Primary B cells from peripheral blood	blood
37	chr3:141597400-141618800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr3:141597600-141598200	Transcr. at gene 5' and 3'	iPS-20b Cell Line	embryonic stem cell
39	chr3:141597600-141598200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr3:141597600-141598400	Transcr. at gene 5' and 3'	Dnd41	blood
41	chr3:141597600-141598400	Flanking Active TSS	NHEK	skin
42	chr3:141597600-141599600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
43	chr3:141597800-141598200	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr3:141597800-141598200	Active TSS	Primary hematopoietic stem cells short term culture	blood
45	chr3:141597800-141598200	Enhancers	Colon Smooth Muscle	Colon
46	chr3:141597800-141598200	Enhancers	Rectal Smooth Muscle	rectum
47	chr3:141597800-141598200	Enhancers	Sigmoid Colon	Sigmoid Colon
48	chr3:141597800-141598200	Enhancers	Osteobl	bone
49	chr3:141597800-141598400	Active TSS	Esophagus	oesophagus
50	chr3:141597800-141598400	Enhancers	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links