Variant report

Variant	rs7654663
Chromosome Location	chr4:26899046-26899047
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10489056	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16878680	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs17570273	1.00[ASN][1000 genomes]
rs17631961	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs36053391	1.00[ASN][1000 genomes]
rs61075882	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6827747	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6853163	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7670910	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7679544	1.00[ASN][1000 genomes]
rs7689377	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7700093	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv470021	chr4:26721578-27067027	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv1001306	chr4:26821511-26955344	Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv461312	chr4:26844674-27078376	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv593872	chr4:26844674-27078376	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv1000568	chr4:26886920-27049554	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:26875600-26904600	Weak transcription	Brain Anterior Caudate	brain
2	chr4:26880600-26902400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr4:26880600-26921600	Weak transcription	Fetal Muscle Trunk	muscle
4	chr4:26885800-26903600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr4:26886600-26899400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr4:26886600-26921600	Weak transcription	Fetal Muscle Leg	muscle
7	chr4:26888400-26901600	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr4:26888600-26899400	Weak transcription	Spleen	Spleen
9	chr4:26889800-26901800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr4:26889800-26906000	Weak transcription	Primary hematopoietic stem cells	blood
11	chr4:26891800-26899400	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr4:26893400-26901600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr4:26893600-26901800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr4:26894600-26903400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr4:26894800-26899400	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr4:26894800-26899600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr4:26894800-26899800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr4:26894800-26899800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr4:26894800-26901600	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr4:26895200-26901200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr4:26895400-26899400	Weak transcription	Primary B cells from peripheral blood	blood
22	chr4:26895400-26899600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr4:26895400-26899600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr4:26895400-26900000	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr4:26895400-26901200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr4:26895800-26899400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr4:26897800-26899400	Weak transcription	Pancreas	Pancrea
28	chr4:26897800-26901600	Weak transcription	Fetal Heart	heart
29	chr4:26897800-26901800	Weak transcription	Left Ventricle	heart
30	chr4:26897800-26902400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr4:26898000-26899800	Weak transcription	Primary T cells from cord blood	blood
32	chr4:26898000-26901600	Weak transcription	Ovary	ovary
33	chr4:26898400-26907400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr4:26898400-26914400	Weak transcription	HSMM	muscle
35	chr4:26898600-26899400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr4:26898600-26901000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr4:26899000-26899400	Weak transcription	Primary T helper cells PMA-I stimulated	--
38	chr4:26899000-26899800	Weak transcription	Primary B cells from cord blood	blood
39	chr4:26899000-26901400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links