Variant report

Variant	rs55684003
Chromosome Location	chr13:97988689-97988690
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:97761028..97763685-chr13:97986933..97989149,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs16952071	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17190203	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17190210	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17268915	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17268922	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2220971	0.86[EUR][1000 genomes]
rs3825422	0.88[EUR][1000 genomes]
rs4578507	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs59036109	0.86[EUR][1000 genomes]
rs59512800	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs59788734	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs60452878	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs60805672	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72637476	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7318821	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7358848	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8000986	0.86[EUR][1000 genomes]
rs9300404	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9554389	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9556698	0.80[AMR][1000 genomes]
rs9556704	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9582124	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9584547	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9584549	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9584554	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9584555	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9584556	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9584559	0.89[EUR][1000 genomes]
rs9584560	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9584564	0.87[EUR][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	nsv832694	chr13:97930561-98137882	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:97942800-97995200	Weak transcription	Thymus	Thymus
2	chr13:97959400-97988800	Weak transcription	Fetal Intestine Large	intestine
3	chr13:97962000-97991200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr13:97965600-97988800	Weak transcription	Primary hematopoietic stem cells	blood
5	chr13:97967400-97991400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr13:97971600-97991400	Weak transcription	Stomach Mucosa	stomach
7	chr13:97971800-97991800	Weak transcription	Small Intestine	intestine
8	chr13:97976200-97990400	Weak transcription	Fetal Brain Male	brain
9	chr13:97980000-97989000	Enhancers	Brain Hippocampus Middle	brain
10	chr13:97980800-97990400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr13:97980800-97991800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr13:97981000-97989200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr13:97981000-97991400	Weak transcription	HMEC	breast
14	chr13:97981000-97998800	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr13:97981200-97991400	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr13:97982000-97989000	Weak transcription	HSMMtube	muscle
17	chr13:97982000-97991400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr13:97982000-98002200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr13:97982000-98009000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr13:97982200-97990400	Weak transcription	Spleen	Spleen
21	chr13:97982200-97991200	Weak transcription	Fetal Kidney	kidney
22	chr13:97982600-97991200	Weak transcription	K562	blood
23	chr13:97982600-98020800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
24	chr13:97982800-97988800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr13:97983000-97991200	Weak transcription	Fetal Heart	heart
26	chr13:97984000-98000800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr13:97984400-97992400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
28	chr13:97985000-97991400	Weak transcription	GM12878-XiMat	blood
29	chr13:97985200-97989400	Strong transcription	Liver	Liver
30	chr13:97985400-97988800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr13:97985600-97992800	Strong transcription	HepG2	liver
32	chr13:97985800-97992000	Strong transcription	Primary B cells from cord blood	blood
33	chr13:97986200-97990200	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr13:97986200-97991600	Strong transcription	Primary T cells fromperipheralblood	blood
35	chr13:97986200-98003200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
36	chr13:97986400-97990400	Strong transcription	Duodenum Mucosa	Duodenum
37	chr13:97986400-97991200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr13:97986400-97991200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr13:97986400-97991400	Strong transcription	Rectal Mucosa Donor 29	rectum
40	chr13:97986400-97992000	Strong transcription	Primary T cells from cord blood	blood
41	chr13:97986400-97992400	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr13:97986600-97988800	Genic enhancers	HUVEC	blood vessel
43	chr13:97986600-97989800	Strong transcription	Ovary	ovary
44	chr13:97986600-97991400	Strong transcription	Monocytes-CD14+_RO01746	blood
45	chr13:97986600-97991600	Strong transcription	Primary B cells from peripheral blood	blood
46	chr13:97986600-97998400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr13:97986800-97990400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr13:97986800-97991400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr13:97987000-97989000	Genic enhancers	Colon Smooth Muscle	Colon
50	chr13:97987000-97989600	Strong transcription	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links