Variant report

Variant	rs13360149
Chromosome Location	chr5:16730870-16730871
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:16727860..16733317-chr5:16734761..16739949,6	MCF-7	breast:
2	chr5:16729939..16731528-chr5:16732175..16733967,2	MCF-7	breast:
3	chr5:16710355..16712259-chr5:16729265..16730891,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145555	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs10051970	0.90[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs17583272	0.89[JPT][hapmap]
rs4702169	1.00[CHB][hapmap];0.89[JPT][hapmap];0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4702170	1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[YRI][hapmap];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869660	chr5:16651289-16766428	Genic enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv880373	chr5:16710572-16785604	Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	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
4	nsv980549	chr5:16728420-16731008	Genic enhancers Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:16682400-16736000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr5:16711200-16736400	Weak transcription	Hela-S3	cervix
3	chr5:16711400-16731800	Weak transcription	HMEC	breast
4	chr5:16711600-16736000	Weak transcription	Placenta	Placenta
5	chr5:16713800-16731600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr5:16713800-16735600	Weak transcription	Colonic Mucosa	Colon
7	chr5:16714200-16736000	Weak transcription	NHDF-Ad	bronchial
8	chr5:16722200-16734200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr5:16722400-16734000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr5:16722600-16736000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr5:16723400-16735600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr5:16724600-16734800	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr5:16727000-16731600	Weak transcription	Gastric	stomach
14	chr5:16727600-16735400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr5:16728000-16732800	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr5:16728400-16733600	Weak transcription	Fetal Kidney	kidney
17	chr5:16728400-16735000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr5:16728400-16736200	Weak transcription	Ovary	ovary
19	chr5:16728400-16736800	Weak transcription	Stomach Smooth Muscle	stomach
20	chr5:16728600-16731800	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr5:16728600-16735000	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr5:16728600-16735200	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr5:16728600-16735400	Weak transcription	Lung	lung
24	chr5:16728600-16736200	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr5:16728800-16733400	Strong transcription	Fetal Intestine Large	intestine
26	chr5:16728800-16735000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr5:16729000-16731600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr5:16729000-16731600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr5:16729000-16731600	Weak transcription	Fetal Stomach	stomach
30	chr5:16729000-16731800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr5:16729000-16731800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
32	chr5:16729000-16731800	Weak transcription	Brain Hippocampus Middle	brain
33	chr5:16729000-16731800	Weak transcription	Fetal Muscle Trunk	muscle
34	chr5:16729000-16732000	Weak transcription	Adipose Nuclei	Adipose
35	chr5:16729000-16732400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr5:16729000-16732400	Weak transcription	Brain Substantia Nigra	brain
37	chr5:16729000-16732600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
38	chr5:16729000-16732800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr5:16729000-16734800	Weak transcription	Pancreas	Pancrea
40	chr5:16729000-16735800	Weak transcription	Brain Angular Gyrus	brain
41	chr5:16729000-16736000	Weak transcription	Spleen	Spleen
42	chr5:16729000-16736400	Weak transcription	Psoas Muscle	Psoas
43	chr5:16729200-16731600	Weak transcription	Duodenum Mucosa	Duodenum
44	chr5:16729200-16731800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr5:16729200-16731800	Weak transcription	Fetal Brain Female	brain
46	chr5:16729400-16732000	Weak transcription	Brain Germinal Matrix	brain
47	chr5:16729800-16731200	Genic enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr5:16729800-16735600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr5:16730000-16731000	Strong transcription	HUES48 Cell Line	embryonic stem cell
50	chr5:16730000-16731000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links