Variant report

Variant	rs9866635
Chromosome Location	chr3:155422219-155422220
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr3:155422140-155422290	RPTEC	kidney:	n/a	n/a

Variant related genes	Relation type
PLCH1	TF binding region

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10212594	0.85[CEU][hapmap]
rs1072140	0.80[CEU][hapmap]
rs11707005	0.85[CEU][hapmap]
rs12638480	0.84[CEU][hapmap]
rs13314098	0.85[CEU][hapmap]
rs13317911	0.85[CEU][hapmap]
rs13326969	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13327502	0.85[CEU][hapmap]
rs16825208	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16825229	1.00[CEU][hapmap];0.92[CHB][hapmap];0.89[JPT][hapmap];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16825256	0.92[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17411990	1.00[CEU][hapmap]
rs1850847	0.84[CEU][hapmap]
rs2304406	0.85[CEU][hapmap]
rs4425301	0.85[CEU][hapmap]
rs4679751	0.85[CEU][hapmap]
rs4680193	0.85[CEU][hapmap]
rs4680195	0.85[CEU][hapmap]
rs4680197	0.84[CEU][hapmap]
rs4680202	0.92[CEU][hapmap]
rs4680206	0.85[CEU][hapmap]
rs4680207	0.85[CEU][hapmap]
rs56007034	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62286076	0.80[EUR][1000 genomes]
rs6783986	0.85[CEU][hapmap]
rs6795967	0.91[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6802895	0.85[CEU][hapmap]
rs6807243	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6807368	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6808145	0.85[CEU][hapmap]
rs7637459	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7644232	0.85[CEU][hapmap]
rs925967	0.84[CEU][hapmap]
rs932207	0.85[CEU][hapmap]
rs932208	0.85[CEU][hapmap]
rs9814642	0.84[CEU][hapmap]
rs9823723	0.84[CEU][hapmap]
rs9829178	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9851365	0.84[CEU][hapmap]
rs9870721	0.84[CEU][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	nsv1009618	chr3:155370034-155492177	Flanking Active TSS Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv829763	chr3:155417552-155470079	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155412600-155422400	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr3:155412600-155437400	Weak transcription	Pancreas	Pancrea
3	chr3:155413800-155432000	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr3:155418800-155423400	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr3:155418800-155423400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr3:155419200-155423600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr3:155419600-155422400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr3:155420000-155423800	Enhancers	Breast Myoepithelial Primary Cells	Breast
9	chr3:155420200-155422400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr3:155420200-155422600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr3:155420200-155422800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr3:155420200-155432200	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr3:155420400-155422400	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr3:155420600-155423000	Enhancers	Brain Germinal Matrix	brain
15	chr3:155420800-155422600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr3:155420800-155423000	Enhancers	Fetal Brain Male	brain
17	chr3:155421200-155422600	Enhancers	Stomach Mucosa	stomach
18	chr3:155421200-155423000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr3:155421400-155423200	Enhancers	Brain Hippocampus Middle	brain
20	chr3:155421400-155423400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr3:155421600-155422400	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr3:155421600-155422800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr3:155421600-155423000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
24	chr3:155421600-155423000	Enhancers	Brain Cingulate Gyrus	brain
25	chr3:155421600-155423400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr3:155421600-155423400	Enhancers	Brain Inferior Temporal Lobe	brain
27	chr3:155421600-155423800	Enhancers	HMEC	breast
28	chr3:155421800-155422800	Flanking Active TSS	Brain Anterior Caudate	brain
29	chr3:155421800-155423400	Enhancers	Brain Angular Gyrus	brain
30	chr3:155421800-155423800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr3:155422000-155423200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr3:155422000-155423200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
33	chr3:155422200-155422400	Genic enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr3:155422200-155423000	Enhancers	HUES6 Cell Line	embryonic stem cell
35	chr3:155422200-155423200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr3:155422200-155423400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr3:155422200-155423400	Enhancers	Brain Substantia Nigra	brain
38	chr3:155422200-155423600	Enhancers	HepG2	liver
39	chr3:155422200-155427800	Weak transcription	Fetal Intestine Small	intestine

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