Variant report

Variant	rs7722357
Chromosome Location	chr5:112460155-112460156
allele	C/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	EP300	chr5:112459959-112460222	SK-N-SH_RA	brain:	n/a	n/a
2	EP300	chr5:112459920-112460306	SK-N-SH_RA	brain:	n/a	n/a
3	RAD21	chr5:112459210-112460453	SK-N-SH	brain:	n/a	chr5:112459453-112459472

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:112459886..112461931-chr5:112462862..112464863,2	MCF-7	breast:

Variant related genes	Relation type
MCC	TF binding region

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10478111	0.89[ASN][1000 genomes]
rs11241194	0.90[CHB][hapmap];0.89[ASN][1000 genomes]
rs13178451	0.90[JPT][hapmap];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13328205	0.95[ASN][1000 genomes]
rs1822490	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2044237	0.89[ASN][1000 genomes]
rs4235789	0.84[AMR][1000 genomes]
rs4705790	0.91[ASN][1000 genomes]
rs55690053	0.89[ASN][1000 genomes]
rs55728256	0.89[ASN][1000 genomes]
rs56216225	0.88[ASN][1000 genomes]
rs57044242	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57876684	0.84[AMR][1000 genomes]
rs58169183	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58572166	0.84[AMR][1000 genomes]
rs58986551	0.84[AMR][1000 genomes]
rs59494679	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59915546	0.89[ASN][1000 genomes]
rs60498444	0.84[AMR][1000 genomes]
rs60853585	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61409374	0.89[ASN][1000 genomes]
rs61708522	0.84[AMR][1000 genomes]
rs73239115	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73778948	0.88[ASN][1000 genomes]
rs7701321	1.00[CHB][hapmap];0.81[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7725873	0.89[ASN][1000 genomes]
rs7731284	0.88[CHB][hapmap]
rs7735738	1.00[CHB][hapmap];0.89[JPT][hapmap];0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][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	nsv599396	chr5:112408944-112853189	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112431200-112461600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr5:112451000-112460600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr5:112451000-112478800	Weak transcription	Aorta	Aorta
4	chr5:112453800-112461800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr5:112454600-112460600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr5:112454800-112460400	Weak transcription	Brain Hippocampus Middle	brain
7	chr5:112454800-112460600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr5:112455000-112462200	Enhancers	Fetal Heart	heart
9	chr5:112455400-112460200	Weak transcription	Stomach Smooth Muscle	stomach
10	chr5:112455400-112461400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr5:112455400-112461400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr5:112456600-112467200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr5:112457200-112460400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr5:112457200-112460400	Weak transcription	Ovary	ovary
15	chr5:112457400-112462000	Enhancers	Adipose Nuclei	Adipose
16	chr5:112458400-112474200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr5:112458600-112474000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr5:112458600-112477000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr5:112458800-112476600	Weak transcription	NHEK	skin
20	chr5:112459000-112460400	Weak transcription	Osteobl	bone
21	chr5:112459200-112460800	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr5:112459200-112461400	Enhancers	Right Ventricle	heart
23	chr5:112459200-112462000	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr5:112459400-112460400	Weak transcription	Psoas Muscle	Psoas
25	chr5:112459400-112460800	Enhancers	Brain Germinal Matrix	brain
26	chr5:112459400-112460800	Enhancers	Fetal Kidney	kidney
27	chr5:112459400-112461600	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr5:112459400-112461600	Enhancers	Fetal Brain Female	brain
29	chr5:112459400-112468400	Weak transcription	NHDF-Ad	bronchial
30	chr5:112459600-112460200	Enhancers	iPS-18 Cell Line	embryonic stem cell
31	chr5:112459600-112460600	Weak transcription	Fetal Muscle Leg	muscle
32	chr5:112459600-112460600	Weak transcription	Pancreas	Pancrea
33	chr5:112459600-112461800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr5:112459600-112462200	Enhancers	Liver	Liver
35	chr5:112459600-112462800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr5:112459800-112460200	Weak transcription	Colon Smooth Muscle	Colon
37	chr5:112459800-112460200	Weak transcription	Left Ventricle	heart
38	chr5:112459800-112460200	Weak transcription	Right Atrium	heart
39	chr5:112459800-112460600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr5:112459800-112462600	Enhancers	Cortex derived primary cultured neurospheres	brain
41	chr5:112460000-112460600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr5:112460000-112460800	Enhancers	Fetal Brain Male	brain
43	chr5:112460000-112461200	Enhancers	Pancreatic Islets	Pancreatic Islet
44	chr5:112460000-112461600	Enhancers	Fetal Lung	lung
45	chr5:112460000-112461800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links