Variant report

Variant	rs9579402
Chromosome Location	chr13:30128277-30128278
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10220050	1.00[CEU][hapmap];0.80[AFR][1000 genomes]
rs10454589	0.82[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10454590	0.91[CEU][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12868663	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13378570	0.80[AFR][1000 genomes]
rs17601608	1.00[YRI][hapmap]
rs17602182	1.00[ASN][1000 genomes]
rs2669038	1.00[CEU][hapmap]
rs34369885	0.95[AFR][1000 genomes]
rs34496705	0.95[AFR][1000 genomes]
rs34831702	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs478085	0.84[CEU][hapmap]
rs555913	1.00[CEU][hapmap]
rs7328329	1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7329421	1.00[YRI][hapmap]
rs7333701	1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs7998704	1.00[CEU][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs819388	0.91[CEU][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9285066	0.80[AFR][1000 genomes]
rs9314960	1.00[CEU][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs9314962	1.00[CEU][hapmap];0.80[AFR][1000 genomes]
rs9578103	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs9578105	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs9578106	0.91[CEU][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9578107	0.91[CEU][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9578108	0.80[AFR][1000 genomes]
rs9579383	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs9579384	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs9579386	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs9579390	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs9579392	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs9579393	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs9579394	0.95[AFR][1000 genomes]
rs9579395	0.95[AFR][1000 genomes]
rs9579396	0.95[AFR][1000 genomes]
rs9579398	0.91[CEU][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579399	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579400	1.00[CEU][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579401	1.00[CEU][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579403	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9579404	0.95[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs9579405	0.90[CEU][hapmap];0.80[AFR][1000 genomes]
rs9579406	1.00[CEU][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs9579407	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9579408	1.00[CEU][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs9579410	1.00[CEU][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs9579411	0.80[AFR][1000 genomes]
rs9579413	0.80[AFR][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	nsv979	chr13:30122254-30167821	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30071000-30128800	Strong transcription	Dnd41	blood
2	chr13:30092200-30133000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr13:30097200-30138400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr13:30098800-30129000	Weak transcription	Primary neutrophils fromperipheralblood	blood
5	chr13:30103800-30137200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr13:30104200-30135400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr13:30105200-30136800	Weak transcription	Brain Germinal Matrix	brain
8	chr13:30107400-30129200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr13:30112800-30129200	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr13:30113200-30141600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr13:30113600-30129200	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr13:30113800-30136200	Weak transcription	Rectal Smooth Muscle	rectum
13	chr13:30117800-30129000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
14	chr13:30119400-30128600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr13:30119400-30128600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr13:30119400-30129200	Strong transcription	NHEK	skin
17	chr13:30119600-30128600	Strong transcription	GM12878-XiMat	blood
18	chr13:30120000-30128400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr13:30121000-30128600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr13:30121200-30128800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr13:30121200-30128800	Strong transcription	Primary T cells fromperipheralblood	blood
22	chr13:30121400-30130000	Weak transcription	Adipose Nuclei	Adipose
23	chr13:30121800-30128600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr13:30122200-30128400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr13:30122200-30128600	Strong transcription	Primary monocytes fromperipheralblood	blood
26	chr13:30122200-30128600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr13:30122200-30128800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr13:30122200-30128800	Strong transcription	Primary T cells from cord blood	blood
29	chr13:30122400-30128800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
30	chr13:30122600-30128800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
31	chr13:30122600-30129000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr13:30122600-30131600	Weak transcription	Small Intestine	intestine
33	chr13:30123000-30128600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr13:30123000-30138600	Weak transcription	Pancreatic Islets	Pancreatic Islet
35	chr13:30123200-30128400	Strong transcription	Primary T helper cells fromperipheralblood	blood
36	chr13:30123200-30128600	Strong transcription	Fetal Stomach	stomach
37	chr13:30123400-30128600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr13:30123600-30128600	Strong transcription	HUES6 Cell Line	embryonic stem cell
39	chr13:30123600-30128600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr13:30123600-30136200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr13:30124800-30128400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr13:30124800-30128400	Strong transcription	Fetal Muscle Trunk	muscle
43	chr13:30125000-30137200	Weak transcription	Brain Anterior Caudate	brain
44	chr13:30125000-30147400	Weak transcription	A549	lung
45	chr13:30125400-30128600	Strong transcription	Duodenum Mucosa	Duodenum
46	chr13:30125600-30128800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr13:30125800-30130800	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr13:30125800-30136600	Weak transcription	Brain Hippocampus Middle	brain
49	chr13:30125800-30142200	Weak transcription	K562	blood
50	chr13:30125800-30143200	Weak transcription	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links