Variant report

Variant	rs58765099
Chromosome Location	chr10:38320823-38320824
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	chr10:38309471..38312276-chr10:38318881..38321681,2	MCF-7	breast:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs56709119	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56963126	0.94[AFR][1000 genomes]
rs57580433	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58224236	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58668540	0.81[AFR][1000 genomes]
rs59845482	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61151835	0.94[AFR][1000 genomes]
rs61166697	0.81[AFR][1000 genomes]
rs7095006	0.94[AFR][1000 genomes]
rs73241989	1.00[AFR][1000 genomes]
rs73244300	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73246319	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73246329	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73246341	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7905567	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895030	chr10:37715737-38674609	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1045684	chr10:37765361-38426204	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv540564	chr10:37765361-38426204	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1040704	chr10:37940024-38451917	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	nsv1051121	chr10:38155991-38426204	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
6	nsv540565	chr10:38155991-38426204	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
7	nsv534122	chr10:38240258-38356008	ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
8	nsv540566	chr10:38301001-38680127	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
9	nsv550419	chr10:38311777-38501654	Enhancers Strong transcription Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:38300600-38331600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr10:38300600-38336000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr10:38300600-38339400	Weak transcription	Psoas Muscle	Psoas
4	chr10:38300800-38322000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr10:38300800-38339200	Weak transcription	HSMMtube	muscle
6	chr10:38301200-38325000	Weak transcription	NHLF	lung
7	chr10:38301800-38326600	Strong transcription	HUES64 Cell Line	embryonic stem cell
8	chr10:38301800-38344400	Weak transcription	Hela-S3	cervix
9	chr10:38302400-38327400	Strong transcription	HUES6 Cell Line	embryonic stem cell
10	chr10:38302800-38327200	Strong transcription	Fetal Intestine Large	intestine
11	chr10:38302800-38327400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr10:38303200-38326400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr10:38303200-38327800	Strong transcription	Primary B cells from cord blood	blood
14	chr10:38304200-38326400	Strong transcription	Primary T cells from cord blood	blood
15	chr10:38305000-38325600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr10:38307400-38321400	Weak transcription	Lung	lung
17	chr10:38307400-38321400	Weak transcription	Spleen	Spleen
18	chr10:38307400-38321600	Weak transcription	Right Ventricle	heart
19	chr10:38307600-38346600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr10:38307800-38321800	Weak transcription	Fetal Brain Male	brain
21	chr10:38307800-38327600	Weak transcription	NHDF-Ad	bronchial
22	chr10:38307800-38336200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr10:38307800-38336600	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr10:38307800-38343600	Weak transcription	Small Intestine	intestine
25	chr10:38307800-38344000	Weak transcription	Stomach Mucosa	stomach
26	chr10:38308000-38342200	Weak transcription	Brain Angular Gyrus	brain
27	chr10:38308600-38327800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr10:38308800-38322000	Weak transcription	Pancreatic Islets	Pancreatic Islet
29	chr10:38309000-38326400	Strong transcription	Dnd41	blood
30	chr10:38309000-38327200	Weak transcription	Fetal Heart	heart
31	chr10:38309000-38339200	Weak transcription	HUVEC	blood vessel
32	chr10:38309000-38342200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr10:38309600-38325000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr10:38309800-38344200	Weak transcription	NH-A	brain
35	chr10:38310000-38324400	Weak transcription	HMEC	breast
36	chr10:38313200-38322200	Strong transcription	Fetal Thymus	thymus
37	chr10:38313800-38322400	Strong transcription	Skeletal Muscle Female	skeletal muscle
38	chr10:38313800-38325600	Strong transcription	Primary T helper cells fromperipheralblood	blood
39	chr10:38313800-38326000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr10:38314000-38326800	Strong transcription	Duodenum Mucosa	Duodenum
41	chr10:38314000-38327400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr10:38314200-38321800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr10:38314200-38321800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr10:38314200-38323000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr10:38314600-38321400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr10:38314600-38342800	Weak transcription	Brain Substantia Nigra	brain
47	chr10:38314800-38321400	Strong transcription	Primary monocytes fromperipheralblood	blood
48	chr10:38314800-38321400	Strong transcription	Primary neutrophils fromperipheralblood	blood
49	chr10:38314800-38321600	Strong transcription	Monocytes-CD14+_RO01746	blood
50	chr10:38315000-38321400	Weak transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links