Variant report

Variant	rs628165
Chromosome Location	chr13:110798827-110798828
allele	A/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:110790546..110793559-chr13:110794348..110799306,5	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1151423	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1192198	1.00[JPT][hapmap]
rs17588591	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs2084040	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs603749	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67563420	0.86[ASN][1000 genomes]
rs681884	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72652093	0.86[ASN][1000 genomes]
rs7981946	1.00[JPT][hapmap]
rs9301432	1.00[JPT][hapmap];0.86[ASN][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	nsv901006	chr13:110748857-110806490	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv456115	chr13:110756664-110806490	Enhancers Bivalent/Poised TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv563100	chr13:110756664-110806490	Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv1052147	chr13:110765635-110917782	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv901007	chr13:110793123-110813709	Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region miRNA target site	n/a	inside rSNPs	diseases
6	esv3398820	chr13:110796251-110800649	Weak transcription Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:110791200-110800600	Weak transcription	HSMMtube	muscle
2	chr13:110791200-110800800	Weak transcription	Fetal Intestine Large	intestine
3	chr13:110791200-110802400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr13:110791200-110807200	Weak transcription	Colonic Mucosa	Colon
5	chr13:110791200-110811600	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr13:110791200-110811800	Weak transcription	Right Atrium	heart
7	chr13:110791200-110825600	Weak transcription	Esophagus	oesophagus
8	chr13:110791400-110799000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr13:110791400-110799600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr13:110791400-110799600	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr13:110791400-110799800	Weak transcription	Left Ventricle	heart
12	chr13:110791400-110800000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr13:110791400-110800000	Weak transcription	Ovary	ovary
14	chr13:110791400-110800200	Weak transcription	NH-A	brain
15	chr13:110791400-110800400	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr13:110791400-110800600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr13:110791400-110800600	Weak transcription	Lung	lung
18	chr13:110791400-110800600	Weak transcription	Right Ventricle	heart
19	chr13:110791400-110800800	Weak transcription	Placenta	Placenta
20	chr13:110791400-110801000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr13:110791400-110802200	Weak transcription	Fetal Heart	heart
22	chr13:110791400-110802400	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr13:110791400-110802400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr13:110791400-110802400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr13:110791400-110802400	Weak transcription	Rectal Smooth Muscle	rectum
26	chr13:110791400-110802600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr13:110791400-110802600	Weak transcription	Pancreas	Pancrea
28	chr13:110791400-110802600	Weak transcription	Spleen	Spleen
29	chr13:110791400-110802600	Weak transcription	NHEK	skin
30	chr13:110791400-110802600	Weak transcription	NHLF	lung
31	chr13:110791400-110802800	Weak transcription	Liver	Liver
32	chr13:110791400-110802800	Weak transcription	Fetal Intestine Small	intestine
33	chr13:110791400-110806600	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr13:110791400-110812800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr13:110791400-110813400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
36	chr13:110791400-110820800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr13:110791400-110825800	Weak transcription	A549	lung
38	chr13:110791400-110868400	Weak transcription	Psoas Muscle	Psoas
39	chr13:110791600-110800000	Weak transcription	HUVEC	blood vessel
40	chr13:110791600-110801000	Weak transcription	HMEC	breast
41	chr13:110791600-110802200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr13:110791600-110802400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
43	chr13:110791600-110802400	Weak transcription	Colon Smooth Muscle	Colon
44	chr13:110791800-110799400	Weak transcription	Osteobl	bone
45	chr13:110792600-110801400	Weak transcription	Fetal Lung	lung
46	chr13:110793800-110799200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr13:110795600-110802600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr13:110795800-110826000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
49	chr13:110796000-110809200	Weak transcription	Brain Hippocampus Middle	brain
50	chr13:110796800-110801000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links