Variant report

Variant	rs59434915
Chromosome Location	chr7:39659506-39659507
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:7)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:7 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr7:39659074-39659630	SK-N-MC	brain:	n/a	n/a
2	POLR2A	chr7:39658382-39659653	MCF10A-Er-Src	breast:	n/a	n/a
3	POLR2A	chr7:39659243-39659542	SK-N-SH	brain:	n/a	n/a
4	POLR2A	chr7:39657518-39659619	MCF10A-Er-Src	breast:	n/a	n/a
5	POLR2A	chr7:39657852-39659679	GM12891	blood:	n/a	n/a
6	POLR2A	chr7:39657726-39663410	K562	blood:	n/a	n/a
7	POLR2A	chr7:39657685-39659936	Hela-S3	cervix:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:39658292..39660332-chr9:35073075..35074754,2	MCF-7	breast:
2	chr7:39650565..39652654-chr7:39656669..39659606,2	MCF-7	breast:
3	chr7:39658345..39659933-chr7:39662491..39664794,2	MCF-7	breast:
4	chr7:39645097..39647250-chr7:39658816..39661772,2	MCF-7	breast:
5	chr7:39659213..39661444-chr7:39666943..39669270,2	K562	blood:
6	chr7:39656910..39659711-chr7:39773116..39775351,2	MCF-7	breast:

No data

Variant related genes	Relation type
RALA	TF binding region
ENSG00000006451	Chromatin interaction
ENSG00000165280	Chromatin interaction
ENSG00000188185	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11983705	0.90[EUR][1000 genomes]
rs11983755	0.90[EUR][1000 genomes]
rs16870185	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16880073	0.90[EUR][1000 genomes]
rs17171605	0.90[EUR][1000 genomes]
rs17171606	0.90[EUR][1000 genomes]
rs2329409	0.90[EUR][1000 genomes]
rs2876857	0.90[EUR][1000 genomes]
rs2876859	0.90[EUR][1000 genomes]
rs2876860	0.90[EUR][1000 genomes]
rs4236361	0.90[EUR][1000 genomes]
rs4236362	0.90[EUR][1000 genomes]
rs4236363	0.90[EUR][1000 genomes]
rs4720332	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4723886	0.90[EUR][1000 genomes]
rs4723890	1.00[EUR][1000 genomes]
rs4723896	0.91[EUR][1000 genomes]
rs56844739	0.90[EUR][1000 genomes]
rs56895888	0.90[EUR][1000 genomes]
rs6942614	0.91[AFR][1000 genomes]
rs6948816	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6949371	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6963428	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73377388	0.90[EUR][1000 genomes]
rs73379304	0.90[EUR][1000 genomes]
rs73689214	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73689251	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73689252	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73689294	0.91[EUR][1000 genomes]
rs7788924	1.00[EUR][1000 genomes]
rs7789326	0.91[EUR][1000 genomes]
rs7805611	1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv887970	chr7:39587912-39688152	Bivalent Enhancer Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39645200-39661600	Weak transcription	A549	lung
2	chr7:39655200-39661800	Weak transcription	Pancreas	Pancrea
3	chr7:39655600-39660400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr7:39655800-39661000	Weak transcription	K562	blood
5	chr7:39656200-39659800	Weak transcription	HSMMtube	muscle
6	chr7:39656200-39660600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr7:39656600-39659600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr7:39656600-39660400	Weak transcription	NH-A	brain
9	chr7:39656600-39661000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr7:39656600-39661400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr7:39656600-39661800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr7:39657000-39659600	Weak transcription	HMEC	breast
13	chr7:39657000-39659800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr7:39657000-39659800	Weak transcription	NHDF-Ad	bronchial
15	chr7:39657000-39659800	Weak transcription	Osteobl	bone
16	chr7:39657000-39660000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr7:39657000-39662200	Weak transcription	HUVEC	blood vessel
18	chr7:39657200-39659600	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr7:39657200-39661000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr7:39658000-39662400	Weak transcription	Esophagus	oesophagus
21	chr7:39658600-39661800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr7:39658600-39661800	Weak transcription	Fetal Lung	lung
23	chr7:39659000-39661600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr7:39659200-39661800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr7:39659400-39659800	Weak transcription	NHLF	lung
26	chr7:39659400-39661200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr7:39659400-39661400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr7:39659400-39661400	Enhancers	NHEK	skin
29	chr7:39659400-39661600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr7:39659400-39661800	Weak transcription	Fetal Thymus	thymus
31	chr7:39659400-39661800	Enhancers	HSMM	muscle
32	chr7:39659400-39662200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links