Variant report

Variant	rs9849682
Chromosome Location	chr3:155089985-155089986
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs4131239	0.82[LWK][hapmap]
rs6769078	0.82[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999994	chr3:154579254-155175303	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv532664	chr3:154588346-155162615	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv1000753	chr3:154848433-155207022	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
4	nsv536773	chr3:154848433-155207022	Enhancers Strong transcription Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
5	nsv1013515	chr3:155065109-155095455	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv1011988	chr3:155070152-155089985	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9849682	PLCH1	cis	cerebellum	SCAN
rs9849682	SLC33A1	cis	cerebellum	SCAN
rs9849682	MLF1	cis	parietal	SCAN

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155085000-155091000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:155085000-155091000	Enhancers	Fetal Lung	lung
3	chr3:155085800-155090200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr3:155087000-155091200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr3:155087600-155090000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr3:155088400-155090200	Weak transcription	Fetal Stomach	stomach
7	chr3:155088600-155090000	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr3:155088800-155090000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr3:155088800-155090000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr3:155088800-155090200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr3:155089000-155090000	Weak transcription	Right Atrium	heart
12	chr3:155089000-155090200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr3:155089000-155090200	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr3:155089000-155090200	Weak transcription	Right Ventricle	heart
15	chr3:155089000-155090400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr3:155089000-155096800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr3:155089200-155090000	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr3:155089200-155090000	Weak transcription	Psoas Muscle	Psoas
19	chr3:155089200-155090200	Weak transcription	Fetal Muscle Leg	muscle
20	chr3:155089200-155090800	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr3:155089400-155090000	Weak transcription	Left Ventricle	heart
22	chr3:155089400-155090800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr3:155089800-155090400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links