Variant report

Variant	rs74109016
Chromosome Location	chr13:96266951-96266952
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:96266664..96268802-chr13:96328604..96330482,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000102580	Chromatin interaction
ENSG00000247400	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs16951257	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17882446	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17885605	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2389266	1.00[EUR][1000 genomes]
rs34303958	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4394949	1.00[EUR][1000 genomes]
rs55649836	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55671956	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56397503	1.00[EUR][1000 genomes]
rs58386476	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs59863382	1.00[AMR][1000 genomes]
rs60689318	1.00[EUR][1000 genomes]
rs61645359	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7323853	1.00[EUR][1000 genomes]
rs74106020	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74106032	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74106197	1.00[EUR][1000 genomes]
rs74106202	1.00[EUR][1000 genomes]
rs74109004	1.00[EUR][1000 genomes]
rs74109005	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74109006	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74109007	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74109009	0.95[AFR][1000 genomes]
rs74109010	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74109011	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74109012	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74109013	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74109014	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74109015	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74109017	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74109018	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74109019	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74109020	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74109021	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74109022	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7984248	1.00[EUR][1000 genomes]
rs7990355	1.00[EUR][1000 genomes]
rs9671129	1.00[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	nsv900934	chr13:96255706-96327574	Strong transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96232200-96272800	Weak transcription	Brain Substantia Nigra	brain
2	chr13:96235600-96284200	Weak transcription	Rectal Smooth Muscle	rectum
3	chr13:96240000-96272800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr13:96240000-96273000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr13:96242200-96272600	Weak transcription	Brain Angular Gyrus	brain
6	chr13:96246400-96278600	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr13:96247200-96267000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr13:96247800-96293600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr13:96248000-96276600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr13:96249400-96272200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr13:96251400-96294400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr13:96255000-96273000	Weak transcription	Brain Hippocampus Middle	brain
13	chr13:96256400-96295200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr13:96256800-96270200	Weak transcription	Aorta	Aorta
15	chr13:96256800-96273000	Weak transcription	Gastric	stomach
16	chr13:96256800-96273000	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr13:96256800-96294200	Weak transcription	Placenta	Placenta
18	chr13:96257000-96267800	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr13:96257000-96268000	Weak transcription	Fetal Intestine Large	intestine
20	chr13:96257000-96268400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr13:96257000-96269400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr13:96258600-96268400	Weak transcription	Fetal Intestine Small	intestine
23	chr13:96258800-96273000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr13:96259800-96267400	Weak transcription	Stomach Mucosa	stomach
25	chr13:96260000-96277000	Strong transcription	Cortex derived primary cultured neurospheres	brain
26	chr13:96260200-96279000	Weak transcription	Liver	Liver
27	chr13:96260200-96293400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
28	chr13:96260400-96270200	Weak transcription	HMEC	breast
29	chr13:96260400-96272600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr13:96260600-96279200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr13:96260800-96273000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
32	chr13:96260800-96277000	Strong transcription	Fetal Muscle Trunk	muscle
33	chr13:96261000-96277000	Strong transcription	Fetal Stomach	stomach
34	chr13:96261000-96277200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr13:96261200-96270600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr13:96261200-96288400	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr13:96261400-96267200	Weak transcription	Pancreas	Pancrea
38	chr13:96261400-96267800	Weak transcription	NHLF	lung
39	chr13:96261400-96273000	Weak transcription	Left Ventricle	heart
40	chr13:96261600-96272200	Weak transcription	Colon Smooth Muscle	Colon
41	chr13:96262000-96280800	Weak transcription	Fetal Heart	heart
42	chr13:96262200-96267000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr13:96262200-96270800	Strong transcription	Ovary	ovary
44	chr13:96262200-96277000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr13:96262600-96275600	Strong transcription	Fetal Brain Female	brain
46	chr13:96262800-96270600	Strong transcription	Fetal Muscle Leg	muscle
47	chr13:96262800-96278000	Strong transcription	HSMM	muscle
48	chr13:96263200-96277000	Strong transcription	Stomach Smooth Muscle	stomach
49	chr13:96263600-96267600	Weak transcription	A549	lung
50	chr13:96263600-96268200	Weak transcription	Fetal Kidney	kidney

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