Variant report

Variant	rs7911418
Chromosome Location	chr10:49754418-49754419
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:49751513..49754463-chr10:49754655..49756558,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000231906	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1078261	0.81[EUR][1000 genomes]
rs1445151	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1838571	0.91[GIH][hapmap]
rs1838572	0.89[CEU][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2004665	0.91[GIH][hapmap];0.82[TSI][hapmap];0.81[EUR][1000 genomes]
rs4838419	0.85[CEU][hapmap];0.94[GIH][hapmap];0.91[TSI][hapmap];0.88[EUR][1000 genomes]
rs4838618	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4838619	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4838620	0.85[CEU][hapmap];0.94[GIH][hapmap];0.91[TSI][hapmap];0.88[EUR][1000 genomes]
rs6537567	0.89[CEU][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7077561	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7092639	0.91[CEU][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs747532	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs935265	0.89[CEU][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs935266	0.89[CEU][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs935267	0.89[CEU][hapmap]
rs935269	1.00[ASW][hapmap];0.89[CEU][hapmap];0.81[MKK][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv895372	chr10:49576878-49933488	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7911418	SYT15	cis	parietal	SCAN

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49734400-49762400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr10:49735400-49756800	Weak transcription	HSMMtube	muscle
3	chr10:49735600-49755600	Weak transcription	Brain Angular Gyrus	brain
4	chr10:49739400-49762400	Weak transcription	Stomach Smooth Muscle	stomach
5	chr10:49742600-49774800	Weak transcription	Aorta	Aorta
6	chr10:49742800-49755200	Weak transcription	Brain Cingulate Gyrus	brain
7	chr10:49742800-49755200	Weak transcription	Brain Hippocampus Middle	brain
8	chr10:49742800-49755600	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr10:49743800-49757800	Weak transcription	HMEC	breast
10	chr10:49746400-49754600	Weak transcription	NHDF-Ad	bronchial
11	chr10:49749600-49758800	Weak transcription	NH-A	brain
12	chr10:49751200-49771600	Weak transcription	Pancreas	Pancrea
13	chr10:49751400-49759600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr10:49752200-49760200	Strong transcription	HSMM	muscle
15	chr10:49753000-49756000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr10:49753000-49760200	Strong transcription	Muscle Satellite Cultured Cells	--
17	chr10:49753200-49760200	Strong transcription	Osteobl	bone
18	chr10:49753400-49756400	Enhancers	Fetal Stomach	stomach
19	chr10:49753400-49759600	Strong transcription	NHLF	lung
20	chr10:49753400-49764400	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr10:49753800-49755200	Strong transcription	Brain Substantia Nigra	brain
22	chr10:49753800-49759600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr10:49754000-49755000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr10:49754000-49756000	Strong transcription	HUVEC	blood vessel
25	chr10:49754000-49756200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr10:49754000-49757400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr10:49754400-49754600	Enhancers	Fetal Lung	lung
28	chr10:49754400-49754800	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr10:49754400-49754800	Weak transcription	Ovary	ovary
30	chr10:49754400-49755400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links