Variant report

Variant	rs9672196
Chromosome Location	chr15:50503958-50503959
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:50503280..50505028-chr15:50510830..50512443,2	MCF-7	breast:
2	chr15:50501377..50505318-chr15:50644153..50648632,4	MCF-7	breast:
3	chr15:50501206..50504913-chr15:50512773..50516360,3	MCF-7	breast:
4	chr15:50502080..50504340-chr15:50536969..50539953,2	MCF-7	breast:
5	chr15:50496479..50501313-chr15:50501450..50504709,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000241175	Chromatin interaction
ENSG00000140284	Chromatin interaction
ENSG00000200605	Chromatin interaction
ENSG00000244879	Chromatin interaction
ENSG00000104064	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10519263	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13329426	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13329489	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13329494	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1365508	0.83[ASN][1000 genomes]
rs16963416	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16963420	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16963426	1.00[ASN][1000 genomes]
rs16963436	0.83[AMR][1000 genomes]
rs16963439	0.83[AMR][1000 genomes]
rs16963441	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16963451	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16963464	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17415862	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17848313	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1802536	1.00[ASN][1000 genomes]
rs2414037	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2414040	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28420348	0.88[AMR][1000 genomes]
rs28430324	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28448432	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28465011	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28505254	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28569877	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28631084	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28665566	0.93[ASN][1000 genomes]
rs28715470	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28715698	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28728273	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34490804	0.80[AMR][1000 genomes]
rs3803371	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs55740521	0.86[AMR][1000 genomes]
rs55828351	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs55852503	0.83[AMR][1000 genomes]
rs56083537	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs56185295	0.88[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs56306192	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6493419	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6493420	0.85[AMR][1000 genomes]
rs6493421	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6493422	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66472276	0.90[AMR][1000 genomes]
rs7162254	1.00[ASN][1000 genomes]
rs7162842	1.00[ASN][1000 genomes]
rs7163191	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7175274	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7182866	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72737046	0.80[AMR][1000 genomes]
rs72737047	0.83[AMR][1000 genomes]
rs72737057	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72737059	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72737086	0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73395114	0.90[AMR][1000 genomes]
rs8029462	1.00[ASN][1000 genomes]
rs8030902	1.00[ASN][1000 genomes]
rs8035068	1.00[ASN][1000 genomes]
rs8035897	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8036826	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8039502	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8040691	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8040819	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8041232	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8041589	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8041910	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8043431	0.83[AMR][1000 genomes]
rs9920511	0.83[AMR][1000 genomes]
rs9920559	0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
2	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv1035983	chr15:50223334-50595170	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv542382	chr15:50223334-50595170	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:50498000-50515200	Weak transcription	K562	blood
2	chr15:50498200-50504800	Strong transcription	Liver	Liver
3	chr15:50501800-50505200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr15:50502000-50505400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr15:50502600-50504000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
6	chr15:50502800-50504600	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr15:50503200-50504000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr15:50503200-50514400	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr15:50503400-50504200	Weak transcription	Gastric	stomach
10	chr15:50503400-50504400	ZNF genes & repeats	Fetal Intestine Small	intestine
11	chr15:50503400-50504600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr15:50503600-50505600	Weak transcription	Fetal Intestine Large	intestine
13	chr15:50503600-50511800	Weak transcription	Hela-S3	cervix
14	chr15:50503600-50513400	Weak transcription	Stomach Mucosa	stomach
15	chr15:50503600-50515600	Weak transcription	A549	lung
16	chr15:50503600-50519800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr15:50503600-50539800	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr15:50503800-50504600	Weak transcription	HepG2	liver
19	chr15:50503800-50515000	Weak transcription	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links