Variant report

Variant	rs10055575
Chromosome Location	chr5:177505130-177505131
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:16)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:177504236..177505735-chr5:177572544..177573847,8	MCF-7	breast:
2	chr5:177504960..177505907-chr5:177550881..177551952,4	MCF-7	breast:
3	chr5:177503413..177514913-chr5:177516551..177522941,24	MCF-7	breast:
4	chr5:177504894..177505463-chr5:177547963..177548508,2	MCF-7	breast:
5	chr5:177503347..177505646-chr5:177641521..177643362,2	MCF-7	breast:
6	chr5:177504362..177505627-chr5:177590887..177591771,5	K562	blood:
7	chr5:177504752..177505489-chr9:138418694..138419470,2	Hela-S3	cervix:
8	chr5:177502685..177509813-chr5:177536412..177543158,8	K562	blood:
9	chr5:177502118..177506821-chr5:177630182..177634773,7	MCF-7	breast:
10	chr5:177503667..177505362-chr5:177557983..177560151,2	K562	blood:
11	chr5:177501622..177505245-chr5:177630293..177635895,8	MCF-7	breast:
12	chr5:177505116..177507198-chr5:177572169..177574026,2	K562	blood:
13	chr5:177504921..177506021-chr5:177540404..177541157,3	MCF-7	breast:
14	chr5:177505071..177505996-chr5:177517634..177518134,2	MCF-7	breast:
15	chr5:177504330..177505240-chr5:177572873..177573648,3	MCF-7	breast:
16	chr5:177504647..177505631-chr5:177540688..177541193,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000197451	Chromatin interaction
ENSG00000145916	Chromatin interaction
ENSG00000145911	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10052107	1.00[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10064472	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10066407	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13165367	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4246824	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4318801	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62390494	0.90[ASN][1000 genomes]
rs6601210	1.00[CEU][hapmap];0.85[CHB][hapmap];0.94[JPT][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6865719	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030383	chr5:177310325-177571254	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
2	nsv883186	chr5:177376317-177549491	Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv948342	chr5:177384542-178168737	Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	141 gene(s)	inside rSNPs	diseases
4	nsv1021198	chr5:177386267-177611648	Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
5	nsv1021060	chr5:177386344-177539867	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	nsv600391	chr5:177488281-177549491	Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
7	nsv1029398	chr5:177502106-178070654	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	136 gene(s)	inside rSNPs	diseases
8	nsv462567	chr5:177505021-177572927	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
9	nsv471058	chr5:177505021-177572927	Enhancers Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
10	nsv600392	chr5:177505021-177572927	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:177493400-177506800	Weak transcription	Right Atrium	heart
2	chr5:177503000-177505600	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr5:177503200-177513200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr5:177503400-177506000	Enhancers	K562	blood
5	chr5:177503600-177511000	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr5:177504000-177506000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr5:177504600-177505200	Enhancers	H1 Cell Line	embryonic stem cell
8	chr5:177504600-177505200	Bivalent Enhancer	HSMM	muscle
9	chr5:177504600-177505400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
10	chr5:177504600-177505600	Enhancers	NHLF	lung
11	chr5:177504600-177505800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr5:177504600-177506000	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr5:177504600-177506000	Flanking Active TSS	Hela-S3	cervix
14	chr5:177504600-177506000	Enhancers	HMEC	breast
15	chr5:177504800-177505200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr5:177504800-177505400	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr5:177504800-177505400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr5:177504800-177505400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr5:177504800-177505400	Enhancers	NHDF-Ad	bronchial
20	chr5:177504800-177505600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
21	chr5:177504800-177505800	Enhancers	Muscle Satellite Cultured Cells	--
22	chr5:177504800-177506000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr5:177504800-177506000	Enhancers	Esophagus	oesophagus
24	chr5:177504800-177506000	Enhancers	HSMMtube	muscle
25	chr5:177504800-177506000	Enhancers	Osteobl	bone
26	chr5:177505000-177505400	Enhancers	ES-I3 Cell Line	embryonic stem cell
27	chr5:177505000-177505400	Enhancers	Fetal Muscle Leg	muscle
28	chr5:177505000-177505400	Enhancers	Placenta	Placenta
29	chr5:177505000-177505600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr5:177505000-177506000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr5:177505000-177513200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links