Variant report

Variant	rs61963740
Chromosome Location	chr13:93886342-93886343
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:93876646..93877175-chr13:93885988..93886813,2	MCF-7	breast:
2	chr13:93876590..93877329-chr13:93885822..93886900,3	MCF-7	breast:
3	chr13:93884164..93886464-chr13:108596378..108598222,2	K562	blood:
4	chr13:93876570..93877337-chr13:93886214..93886903,5	MCF-7	breast:
5	chr13:93876929..93879423-chr13:93883846..93886399,2	K562	blood:
6	chr13:93822312..93824995-chr13:93884132..93886825,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000183098	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1008993	0.86[EUR][1000 genomes]
rs1328366	0.81[AMR][1000 genomes]
rs1328370	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17188802	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17267523	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17645969	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17645998	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs59772512	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61963718	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61963741	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61963744	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61963746	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61963747	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61963748	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61965664	0.81[AMR][1000 genomes]
rs61965665	0.81[ASN][1000 genomes]
rs72633947	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869070	chr13:93347616-94286933	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1053035	chr13:93842576-94229732	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv541880	chr13:93842576-94229732	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:93881800-93887400	Weak transcription	NHDF-Ad	bronchial
2	chr13:93882000-93886400	Weak transcription	Ovary	ovary
3	chr13:93883200-93886400	Weak transcription	Aorta	Aorta
4	chr13:93883200-93887600	Weak transcription	Fetal Lung	lung
5	chr13:93883200-93888000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr13:93883200-93888400	Weak transcription	NH-A	brain
7	chr13:93883200-93890000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr13:93883200-93896000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr13:93883200-93896000	Weak transcription	HSMM	muscle
10	chr13:93883400-93887400	Weak transcription	Colon Smooth Muscle	Colon
11	chr13:93883400-93887800	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr13:93883400-93888800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr13:93883600-93886400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr13:93883600-93886400	Weak transcription	Osteobl	bone
15	chr13:93883600-93887400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr13:93884000-93888800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr13:93884400-93889800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr13:93884800-93886800	Enhancers	HepG2	liver
19	chr13:93885400-93888400	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr13:93885800-93886400	Enhancers	H1 Cell Line	embryonic stem cell
21	chr13:93885800-93886400	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr13:93885800-93886400	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
23	chr13:93885800-93886400	Genic enhancers	Fetal Intestine Large	intestine
24	chr13:93885800-93886600	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
25	chr13:93885800-93886600	ZNF genes & repeats	Fetal Intestine Small	intestine
26	chr13:93885800-93886800	Enhancers	H9 Cell Line	embryonic stem cell
27	chr13:93885800-93886800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr13:93885800-93886800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr13:93885800-93887400	Enhancers	HUES64 Cell Line	embryonic stem cell
30	chr13:93885800-93887400	Enhancers	A549	lung
31	chr13:93885800-93888000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
32	chr13:93885800-93888600	Enhancers	Adipose Nuclei	Adipose
33	chr13:93885800-93888800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr13:93886000-93886400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr13:93886000-93886400	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
36	chr13:93886000-93886600	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr13:93886000-93886600	Strong transcription	Fetal Stomach	stomach
38	chr13:93886000-93887000	Enhancers	ES-I3 Cell Line	embryonic stem cell
39	chr13:93886000-93888600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr13:93886200-93886400	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
41	chr13:93886200-93886400	Active TSS	Fetal Kidney	kidney
42	chr13:93886200-93886600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr13:93886200-93886600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
44	chr13:93886200-93886600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
45	chr13:93886200-93886800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
46	chr13:93886200-93888800	Enhancers	Liver	Liver

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