Variant report

Variant	rs2100679
Chromosome Location	chr4:89779698-89779699
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:89778194..89779923-chr4:89788297..89790207,2	K562	blood:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10001319	0.82[CEU][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10022272	1.00[CEU][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11097200	0.82[CEU][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11735482	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12649368	0.96[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1379934	0.85[CEU][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1563688	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17815876	0.93[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34321014	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4456928	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62308743	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6847388	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7680357	0.80[EUR][1000 genomes]
rs7690881	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[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	nsv470051	chr4:89644931-90643144	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1009354	chr4:89725914-89985155	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:89765000-89780400	Weak transcription	Ovary	ovary
2	chr4:89765000-89780600	Weak transcription	Left Ventricle	heart
3	chr4:89765200-89780400	Weak transcription	Fetal Muscle Leg	muscle
4	chr4:89765400-89780400	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr4:89765400-89780800	Weak transcription	Duodenum Mucosa	Duodenum
6	chr4:89766000-89780400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr4:89767600-89779800	Weak transcription	Fetal Stomach	stomach
8	chr4:89767800-89780400	Weak transcription	Fetal Kidney	kidney
9	chr4:89767800-89780800	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr4:89768800-89789400	Weak transcription	Fetal Intestine Small	intestine
11	chr4:89771000-89803200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr4:89772200-89779800	Weak transcription	Placenta	Placenta
13	chr4:89773600-89784200	Weak transcription	Gastric	stomach
14	chr4:89775400-89780400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr4:89778400-89782800	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr4:89778800-89780200	Enhancers	Primary neutrophils fromperipheralblood	blood
17	chr4:89778800-89782200	Enhancers	Fetal Lung	lung
18	chr4:89779000-89779800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr4:89779000-89781600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
20	chr4:89779400-89780800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr4:89779400-89781400	Enhancers	Primary hematopoietic stem cells	blood
22	chr4:89779600-89780000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
23	chr4:89779600-89780000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr4:89779600-89780000	Flanking Active TSS	GM12878-XiMat	blood
25	chr4:89779600-89780800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr4:89779600-89780800	Enhancers	NHDF-Ad	bronchial
27	chr4:89779600-89781000	Enhancers	Adipose Nuclei	Adipose
28	chr4:89779600-89781400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr4:89779600-89781600	Enhancers	Primary B cells from cord blood	blood
30	chr4:89779600-89782200	Enhancers	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links