Variant report

Variant	rs963184
Chromosome Location	chr5:167224580-167224581
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10780110	0.88[AFR][1000 genomes]
rs1459068	0.85[YRI][hapmap]
rs1459070	0.85[YRI][hapmap]
rs2909802	1.00[YRI][hapmap]
rs2911501	0.84[AFR][1000 genomes]
rs2911502	1.00[LWK][hapmap];1.00[YRI][hapmap]
rs2973661	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs2973662	1.00[LWK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs2973668	0.87[YRI][hapmap]
rs4242227	0.85[YRI][hapmap]
rs4637571	1.00[YRI][hapmap]
rs4868805	0.85[YRI][hapmap]
rs6863622	1.00[YRI][hapmap]

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	nsv932627	chr5:166744408-167290959	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1027805	chr5:167082800-167285008	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs963184	AHSP	trans	lymphoblastoid	seeQTL

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:167210800-167225000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr5:167218000-167229600	Weak transcription	HSMM	muscle
3	chr5:167218200-167225000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr5:167219600-167225200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr5:167219600-167225400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr5:167219800-167229600	Weak transcription	NH-A	brain
7	chr5:167220200-167225200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr5:167220200-167229600	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr5:167220400-167229600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr5:167221800-167225000	Weak transcription	Primary monocytes fromperipheralblood	blood
11	chr5:167221800-167225200	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr5:167222000-167227200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr5:167223200-167225400	Enhancers	Osteobl	bone
14	chr5:167223800-167225400	Weak transcription	Fetal Brain Male	brain
15	chr5:167223800-167226200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr5:167224000-167224600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr5:167224200-167225800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr5:167224200-167226200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr5:167224400-167225400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr5:167224400-167225800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links