Variant report

Variant	rs9394502
Chromosome Location	chr6:38452503-38452504
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:38447684..38449733-chr6:38451099..38453869,2	K562	blood:

Variant related genes	Relation type
ENSG00000226533	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs10947739	0.82[CEU][hapmap]
rs3923809	0.82[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap];0.89[ASN][1000 genomes]
rs4236060	0.82[CEU][hapmap]

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	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv885820	chr6:38166511-38468887	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1022724	chr6:38332368-38454527	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38437000-38455400	Weak transcription	Gastric	stomach
2	chr6:38444600-38496200	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr6:38445400-38452600	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr6:38446200-38453400	Weak transcription	Primary T cells from cord blood	blood
5	chr6:38446600-38455400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr6:38449800-38461600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr6:38450000-38453200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr6:38450000-38461000	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr6:38450600-38469800	Weak transcription	HSMMtube	muscle
10	chr6:38450800-38455200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr6:38450800-38458000	Weak transcription	Fetal Lung	lung
12	chr6:38450800-38461600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:38451000-38461000	Weak transcription	Fetal Brain Male	brain
14	chr6:38451400-38452600	Enhancers	Monocytes-CD14+_RO01746	blood
15	chr6:38451600-38471000	Weak transcription	Psoas Muscle	Psoas
16	chr6:38451800-38452600	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr6:38451800-38453200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr6:38452000-38454000	Enhancers	GM12878-XiMat	blood
19	chr6:38452400-38453200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr6:38452400-38453200	Weak transcription	Primary B cells from peripheral blood	blood
21	chr6:38452400-38496600	Weak transcription	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links