Variant report

Variant	rs60403632
Chromosome Location	chr5:179253045-179253046
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:179252799..179257821-chr5:179257862..179261026,6	MCF-7	breast:
2	chr5:179201108..179203177-chr5:179252053..179254407,3	K562	blood:
3	chr5:179252835..179255633-chr5:179294547..179297235,2	K562	blood:
4	chr5:179249726..179253531-chr5:179284409..179289652,9	K562	blood:
5	chr5:179200621..179203177-chr5:179250924..179255178,5	K562	blood:
6	chr5:179049807..179052061-chr5:179251818..179254283,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169045	Chromatin interaction
ENSG00000245317	Chromatin interaction
ENSG00000161010	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs55782074	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55986721	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56225166	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57713691	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58652165	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58713160	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60462250	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61613267	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61748794	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73334031	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73334055	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73334063	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73335948	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73351618	1.00[AMR][1000 genomes]
rs73810204	1.00[AMR][1000 genomes]
rs73810488	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949554	chr5:178832325-179309513	Transcr. at gene 5' and 3' Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	312 gene(s)	inside rSNPs	diseases
2	nsv883270	chr5:178951106-179350387	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	312 gene(s)	inside rSNPs	diseases
3	nsv531997	chr5:179107599-179588082	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	339 gene(s)	inside rSNPs	diseases
4	nsv469579	chr5:179184831-179360191	Genic enhancers Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	182 gene(s)	inside rSNPs	diseases
5	nsv883274	chr5:179186397-179310330	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	178 gene(s)	inside rSNPs	diseases
6	nsv883275	chr5:179193598-179267783	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Enhancers Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	176 gene(s)	inside rSNPs	diseases
7	nsv883276	chr5:179193598-179310330	Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	178 gene(s)	inside rSNPs	diseases
8	nsv883277	chr5:179193598-179350387	Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	182 gene(s)	inside rSNPs	diseases
9	nsv1030437	chr5:179235423-179649944	Enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	189 gene(s)	inside rSNPs	diseases
10	nsv537982	chr5:179235423-179649944	Active TSS Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	189 gene(s)	inside rSNPs	diseases
11	nsv948909	chr5:179249099-179772640	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	175 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:179249000-179253200	Transcr. at gene 5' and 3'	Breast Myoepithelial Primary Cells	Breast
2	chr5:179249400-179254800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr5:179249600-179262600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr5:179249800-179261600	Strong transcription	Primary neutrophils fromperipheralblood	blood
5	chr5:179250000-179254000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr5:179250000-179254200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr5:179250000-179254600	Strong transcription	HUES6 Cell Line	embryonic stem cell
8	chr5:179250000-179254600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
9	chr5:179250000-179255000	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr5:179250000-179255000	Strong transcription	HUES48 Cell Line	embryonic stem cell
11	chr5:179250000-179255200	Genic enhancers	Fetal Intestine Large	intestine
12	chr5:179250000-179255200	Genic enhancers	Placenta	Placenta
13	chr5:179250000-179255400	Genic enhancers	Fetal Intestine Small	intestine
14	chr5:179250000-179255800	Strong transcription	H9 Cell Line	embryonic stem cell
15	chr5:179250000-179260800	Strong transcription	Dnd41	blood
16	chr5:179250000-179261000	Strong transcription	NHEK	skin
17	chr5:179250000-179261200	Strong transcription	Primary B cells from peripheral blood	blood
18	chr5:179250000-179261200	Strong transcription	Fetal Lung	lung
19	chr5:179250000-179261400	Strong transcription	Fetal Brain Female	brain
20	chr5:179250000-179261600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr5:179250000-179261600	Strong transcription	Fetal Stomach	stomach
22	chr5:179250000-179263000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr5:179250200-179253400	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr5:179250200-179253800	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr5:179250200-179253800	Strong transcription	Thymus	Thymus
26	chr5:179250200-179254600	Strong transcription	HUES64 Cell Line	embryonic stem cell
27	chr5:179250200-179254600	Strong transcription	iPS-15b Cell Line	embryonic stem cell
28	chr5:179250200-179255000	Strong transcription	H1 Cell Line	embryonic stem cell
29	chr5:179250200-179255000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
30	chr5:179250200-179255200	Genic enhancers	Duodenum Mucosa	Duodenum
31	chr5:179250200-179255800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr5:179250200-179256800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr5:179250200-179261200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr5:179250200-179261400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr5:179250200-179272000	Strong transcription	Fetal Muscle Leg	muscle
36	chr5:179250200-179272800	Weak transcription	Fetal Brain Male	brain
37	chr5:179250400-179258200	Strong transcription	Primary B cells from cord blood	blood
38	chr5:179250400-179261400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr5:179250400-179261400	Strong transcription	Brain Germinal Matrix	brain
40	chr5:179250600-179253200	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr5:179250600-179253200	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr5:179250600-179254000	Strong transcription	Primary hematopoietic stem cells	blood
43	chr5:179250600-179255800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr5:179250600-179256800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr5:179250800-179253400	Strong transcription	Primary T killer memory cells from peripheral blood	blood
46	chr5:179250800-179254000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
47	chr5:179250800-179254000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr5:179250800-179254400	Strong transcription	Primary T helper cells PMA-I stimulated	--
49	chr5:179250800-179254800	Strong transcription	Placenta Amnion	Placenta Amnion
50	chr5:179250800-179255000	Genic enhancers	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links