Variant report

Variant	rs1920981
Chromosome Location	chr2:173263090-173263091
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10930554	1.00[CHD][hapmap];0.83[LWK][hapmap];0.86[MKK][hapmap];0.83[AFR][1000 genomes]
rs17220454	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17286255	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1882165	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2141699	0.86[AFR][1000 genomes]
rs34924026	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4972507	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4972508	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4972822	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4972824	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4972825	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62169704	0.94[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533927	chr2:173161637-173796894	Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1920981	WIPF1	cis	cerebellum	SCAN

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:173259000-173268400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr2:173259400-173263200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr2:173260400-173263400	Enhancers	Adipose Nuclei	Adipose
4	chr2:173260400-173263600	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr2:173260400-173263600	Enhancers	Fetal Muscle Leg	muscle
6	chr2:173260600-173263400	Enhancers	Psoas Muscle	Psoas
7	chr2:173260800-173266800	Weak transcription	Fetal Thymus	thymus
8	chr2:173261200-173263200	Enhancers	HSMMtube	muscle
9	chr2:173261400-173263400	Enhancers	Ovary	ovary
10	chr2:173261600-173263400	Enhancers	Lung	lung
11	chr2:173261600-173263400	Enhancers	Skeletal Muscle Female	skeletal muscle
12	chr2:173261600-173264000	Enhancers	Fetal Muscle Trunk	muscle
13	chr2:173262000-173263200	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr2:173262200-173269600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr2:173262400-173263400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr2:173262600-173263400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr2:173262600-173266800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr2:173262600-173268000	Weak transcription	Esophagus	oesophagus
19	chr2:173262800-173263200	Weak transcription	Left Ventricle	heart
20	chr2:173262800-173263200	Weak transcription	Right Atrium	heart
21	chr2:173262800-173263200	Weak transcription	Right Ventricle	heart
22	chr2:173262800-173263800	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr2:173262800-173264400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr2:173262800-173264400	Weak transcription	Fetal Intestine Small	intestine
25	chr2:173262800-173267400	Weak transcription	NHEK	skin
26	chr2:173263000-173263400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links