Variant report

Variant	rs61209164
Chromosome Location	chr15:45877552-45877553
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:5)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:5 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EBF1	chr15:45877440-45877697	GM12878	blood:	n/a	n/a
2	EP300	chr15:45877461-45877601	GM12878	blood:	n/a	n/a
3	POLR2A	chr15:45877418-45881150	K562	blood:	n/a	n/a
4	RUNX3	chr15:45877280-45877622	GM12878	blood:	n/a	n/a
5	POLR2A	chr15:45877417-45877698	MCF10A-Er-Src	breast:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:45877501..45879866-chr15:45923125..45926614,3	MCF-7	breast:
2	chr15:45813492..45816353-chr15:45876550..45880712,4	MCF-7	breast:
3	chr15:45864613..45866606-chr15:45876015..45877880,2	MCF-7	breast:
4	chr15:45813184..45816148-chr15:45875521..45877981,2	MCF-7	breast:
5	chr15:45693513..45696404-chr15:45876472..45881031,4	MCF-7	breast:

No data

Variant related genes	Relation type
BLOC1S6	TF binding region
ENSG00000260170	TF binding region
ENSG00000179362	Chromatin interaction
ENSG00000171763	Chromatin interaction
ENSG00000171766	Chromatin interaction
ENSG00000104154	Chromatin interaction
ENSG00000137767	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs16945097	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17627219	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1966763	0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3649	0.84[AMR][1000 genomes]
rs55755923	0.90[EUR][1000 genomes]
rs55806911	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55913172	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55997350	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56081351	0.91[EUR][1000 genomes]
rs56179992	0.84[ASN][1000 genomes]
rs56190351	0.91[EUR][1000 genomes]
rs56259807	0.91[EUR][1000 genomes]
rs56304405	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56375332	0.91[EUR][1000 genomes]
rs56395216	0.91[EUR][1000 genomes]
rs57291883	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59593563	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60351453	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60378269	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60992352	0.84[ASN][1000 genomes]
rs68044128	0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7164956	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7165827	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7178395	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7178879	0.87[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7179265	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7179903	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7181436	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72711301	0.84[ASN][1000 genomes]
rs72713103	0.84[ASN][1000 genomes]
rs72713104	0.84[ASN][1000 genomes]
rs72713105	0.84[ASN][1000 genomes]
rs72713106	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72713107	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72713168	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72713169	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72713171	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72713172	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72713175	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72713177	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72713178	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72713180	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs72713182	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72713185	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72713191	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72713197	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72713199	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72713201	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72715003	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72715005	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72715008	0.90[EUR][1000 genomes]
rs72715010	0.91[EUR][1000 genomes]
rs72715014	0.91[EUR][1000 genomes]
rs72715019	0.91[EUR][1000 genomes]
rs72715020	0.91[EUR][1000 genomes]
rs72715077	0.91[EUR][1000 genomes]
rs8025407	0.84[ASN][1000 genomes]
rs8041902	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv1045556	chr15:45777396-45884854	Strong transcription Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
2	nsv904188	chr15:45801035-45941689	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv904189	chr15:45821158-46298458	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:45873400-45878000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr15:45875400-45878600	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr15:45875600-45878000	Enhancers	K562	blood
4	chr15:45876200-45878000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr15:45876200-45878200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr15:45876400-45878800	Weak transcription	Aorta	Aorta
7	chr15:45876600-45877800	Weak transcription	Primary B cells from cord blood	blood
8	chr15:45876600-45878000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr15:45876800-45877800	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr15:45876800-45878400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr15:45876800-45878400	Weak transcription	Primary neutrophils fromperipheralblood	blood
12	chr15:45876800-45878600	Enhancers	Placenta	Placenta
13	chr15:45877200-45878000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr15:45877200-45878400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr15:45877400-45877600	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr15:45877400-45877600	Enhancers	Fetal Intestine Small	intestine
17	chr15:45877400-45877800	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr15:45877400-45878000	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr15:45877400-45878000	Active TSS	Brain Germinal Matrix	brain
20	chr15:45877400-45878000	Enhancers	Fetal Kidney	kidney
21	chr15:45877400-45878200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
22	chr15:45877400-45878200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr15:45877400-45878200	Enhancers	Fetal Lung	lung
24	chr15:45877400-45878400	Enhancers	Primary T helper cells PMA-I stimulated	--
25	chr15:45877400-45878400	Enhancers	Fetal Intestine Large	intestine
26	chr15:45877400-45878600	Enhancers	Primary T helper cells fromperipheralblood	blood
27	chr15:45877400-45878600	Enhancers	Fetal Muscle Leg	muscle
28	chr15:45877400-45878800	Enhancers	Placenta Amnion	Placenta Amnion
29	chr15:45877400-45881800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links