Variant report

Variant	rs2505300
Chromosome Location	chr10:27790107-27790108
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr10:27789595-27790240	MCF10A-Er-Src	breast:	n/a	chr10:27790024-27790033 chr10:27790023-27790034
2	STAT3	chr10:27789924-27790144	MCF10A-Er-Src	breast:	n/a	chr10:27790053-27790076
3	FOS	chr10:27789819-27790219	MCF10A-Er-Src	breast:	n/a	chr10:27790024-27790033 chr10:27790023-27790034
4	FOS	chr10:27789827-27790222	MCF10A-Er-Src	breast:	n/a	chr10:27790024-27790033 chr10:27790023-27790034
5	MYC	chr10:27789853-27790289	MCF10A-Er-Src	breast:	n/a	chr10:27790023-27790032 chr10:27789871-27789881
6	FOS	chr10:27789817-27790219	MCF10A-Er-Src	breast:	n/a	chr10:27790024-27790033 chr10:27790023-27790034
7	STAT3	chr10:27789957-27790162	MCF10A-Er-Src	breast:	n/a	chr10:27790053-27790076
8	MYC	chr10:27789888-27790217	MCF10A-Er-Src	breast:	n/a	chr10:27790023-27790032

No.	Distal block	Cell Line	Cell type
1	chr10:27788720..27791129-chr10:27796787..27799412,2	K562	blood:
2	chr10:27769453..27771996-chr10:27788773..27790956,2	K562	blood:
3	chr10:27789595..27792286-chr10:27793147..27794733,2	MCF-7	breast:

Variant related genes	Relation type
RAB18	TF binding region
ENSG00000099246	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10741135	0.84[ASN][1000 genomes]
rs10829263	0.90[ASN][1000 genomes]
rs10829269	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11015813	0.80[ASN][1000 genomes]
rs11015814	0.83[ASN][1000 genomes]
rs1157735	0.90[ASN][1000 genomes]
rs11597728	0.95[CHB][hapmap];0.95[CHD][hapmap];0.81[JPT][hapmap]
rs11812227	0.84[ASN][1000 genomes]
rs12220158	0.80[ASN][1000 genomes]
rs2477328	0.93[EUR][1000 genomes]
rs2477329	0.90[ASN][1000 genomes]
rs2477330	0.93[EUR][1000 genomes]
rs2477332	0.93[EUR][1000 genomes]
rs2477333	0.91[EUR][1000 genomes]
rs2477334	0.88[ASN][1000 genomes]
rs2477337	0.90[ASN][1000 genomes]
rs2477338	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2477340	0.93[EUR][1000 genomes]
rs2505295	0.92[EUR][1000 genomes]
rs2505331	0.90[ASN][1000 genomes]
rs2505334	0.92[EUR][1000 genomes]
rs56851979	0.90[ASN][1000 genomes]
rs592818	0.84[ASN][1000 genomes]
rs61285402	0.83[ASN][1000 genomes]
rs627663	0.85[ASN][1000 genomes]
rs660053	0.82[ASN][1000 genomes]
rs7915734	0.87[ASN][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	nsv8614	chr10:27504487-27828406	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv550241	chr10:27569521-28025771	Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv1045257	chr10:27572440-27926946	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv1053952	chr10:27659365-27915029	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27789200-27790800	Enhancers	HMEC	breast
2	chr10:27789200-27791000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr10:27789400-27790200	Flanking Active TSS	NHEK	skin
4	chr10:27789400-27790400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr10:27789800-27792400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr10:27790000-27790600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr10:27790000-27792800	Weak transcription	Esophagus	oesophagus

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