Variant report

Variant	rs716555
Chromosome Location	chr5:16844859-16844860
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr14:77519468..77520138-chr5:16844783..16845778,2	MCF-7	breast:
2	chr5:16844775..16845487-chr5:17132389..17133714,4	MCF-7	breast:
3	chr5:16844822..16845733-chr5:17189257..17190121,5	MCF-7	breast:
4	chr5:16844716..16845739-chr5:17189554..17191043,3	MCF-7	breast:
5	chr5:16844783..16845610-chr5:16933834..16934784,3	MCF-7	breast:
6	chr5:16844722..16845699-chr5:17190257..17190921,4	MCF-7	breast:
7	chr5:16844825..16845663-chr5:17132355..17133261,2	MCF-7	breast:
8	chr5:16843726..16846155-chr5:16931255..16933740,2	MCF-7	breast:

No data

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10213765	0.87[CHB][hapmap];0.81[CHD][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs10213824	0.87[CHB][hapmap];0.87[JPT][hapmap];0.91[ASN][1000 genomes]
rs13164534	0.87[CHB][hapmap];0.94[ASN][1000 genomes]
rs13181529	0.94[ASN][1000 genomes]
rs13187027	0.87[ASN][1000 genomes]
rs17651266	0.81[CHB][hapmap];0.89[CHD][hapmap];1.00[LWK][hapmap];0.86[ASN][1000 genomes]
rs17651344	1.00[CEU][hapmap];0.87[CHB][hapmap];0.84[CHD][hapmap];0.94[JPT][hapmap];0.88[LWK][hapmap];0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs17707735	0.81[CHB][hapmap];0.89[CHD][hapmap];0.87[ASN][1000 genomes]
rs17707780	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs185235	0.91[ASN][1000 genomes]
rs253333	0.85[ASN][1000 genomes]
rs2560861	0.81[CHB][hapmap];0.89[CHD][hapmap];0.91[ASN][1000 genomes]
rs31499	0.83[CHB][hapmap];0.95[CHD][hapmap];0.86[ASN][1000 genomes]
rs31501	0.84[ASN][1000 genomes]
rs34029608	0.91[ASN][1000 genomes]
rs34055160	0.96[ASN][1000 genomes]
rs35145816	0.93[ASN][1000 genomes]
rs40985	0.83[CEU][hapmap];0.87[CHB][hapmap];0.89[CHD][hapmap];0.92[ASN][1000 genomes]
rs62369354	0.87[ASN][1000 genomes]
rs62370982	0.93[ASN][1000 genomes]
rs62370983	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025225	chr5:16714512-17234866	Enhancers Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	esv3529928	chr5:16748426-16856563	Genic enhancers Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
3	esv3529929	chr5:16748426-16856563	Flanking Active TSS Weak transcription Genic enhancers Enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv1030550	chr5:16748966-16872084	Genic enhancers Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv1015247	chr5:16748966-17133274	Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
6	esv2762500	chr5:16815489-16952565	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases
7	nsv880277	chr5:16829442-17316288	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
8	nsv461987	chr5:16834568-16848200	Flanking Active TSS Weak transcription Enhancers Genic enhancers Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv597310	chr5:16834568-16848200	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS	Chromatin interactive region	1 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	chr5:16818000-16846600	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr5:16820400-16845400	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr5:16820600-16845000	Weak transcription	NH-A	brain
4	chr5:16820800-16855200	Weak transcription	HSMM	muscle
5	chr5:16828000-16852400	Weak transcription	NHDF-Ad	bronchial
6	chr5:16829400-16855800	Weak transcription	Fetal Intestine Small	intestine
7	chr5:16830400-16846600	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr5:16832400-16855000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr5:16834400-16846200	Weak transcription	Osteobl	bone
10	chr5:16834800-16853400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr5:16838200-16853600	Weak transcription	Fetal Muscle Leg	muscle
12	chr5:16839000-16853000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr5:16839000-16855800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr5:16839000-16864600	Weak transcription	Fetal Brain Female	brain
15	chr5:16839200-16849600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr5:16841800-16852400	Weak transcription	Fetal Stomach	stomach
17	chr5:16841800-16855600	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr5:16842400-16849600	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr5:16842400-16862800	Weak transcription	Stomach Mucosa	stomach
20	chr5:16842600-16855200	Weak transcription	HUVEC	blood vessel
21	chr5:16842600-16855600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr5:16842800-16848600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr5:16842800-16849200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr5:16843000-16846200	Weak transcription	Small Intestine	intestine
25	chr5:16843400-16845400	Weak transcription	Pancreas	Pancrea
26	chr5:16843400-16846400	Weak transcription	Gastric	stomach
27	chr5:16843400-16846600	Weak transcription	Esophagus	oesophagus
28	chr5:16843400-16847200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr5:16843400-16855000	Weak transcription	Lung	lung
30	chr5:16843600-16845000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr5:16843600-16846600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr5:16843600-16846600	Weak transcription	Fetal Kidney	kidney
33	chr5:16843600-16847600	Weak transcription	Fetal Thymus	thymus
34	chr5:16843600-16852800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr5:16843600-16853600	Weak transcription	HSMMtube	muscle
36	chr5:16843800-16845000	Weak transcription	Fetal Lung	lung
37	chr5:16843800-16845400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr5:16844400-16855600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr5:16844600-16845000	Genic enhancers	A549	lung
40	chr5:16844600-16845400	Enhancers	iPS-15b Cell Line	embryonic stem cell
41	chr5:16844600-16845600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr5:16844600-16847000	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr5:16844800-16846400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr5:16844800-16846800	Strong transcription	HMEC	breast
45	chr5:16844800-16855600	Weak transcription	NHEK	skin

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