Variant report

Variant	rs10778399
Chromosome Location	chr12:105826309-105826310
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10746030	0.84[ASN][1000 genomes]
rs10746031	0.88[ASN][1000 genomes]
rs10746032	0.94[ASN][1000 genomes]
rs10746033	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10778400	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10778401	0.90[ASN][1000 genomes]
rs10778404	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10778405	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10861425	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10861427	0.86[ASN][1000 genomes]
rs10861428	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11112529	0.87[ASN][1000 genomes]
rs1344779	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1821231	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2060203	0.92[ASN][1000 genomes]
rs2103230	0.94[ASN][1000 genomes]
rs4964136	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4964139	0.92[ASN][1000 genomes]
rs4964373	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4964376	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs7311949	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7955724	0.86[AFR][1000 genomes]
rs7965043	0.91[AFR][1000 genomes]
rs7972634	0.92[YRI][hapmap]
rs7980357	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs934415	0.93[ASN][1000 genomes]
rs934416	0.94[ASN][1000 genomes]
rs9788109	0.90[ASN][1000 genomes]
rs9788271	0.94[ASN][1000 genomes]
rs9971736	0.93[AFR][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	nsv899501	chr12:105819046-105950801	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv832507	chr12:105821685-106005186	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:105813000-105832400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr12:105817800-105827200	Weak transcription	Hela-S3	cervix
3	chr12:105820600-105832600	Weak transcription	Gastric	stomach
4	chr12:105821600-105828000	Weak transcription	Right Atrium	heart
5	chr12:105822000-105827200	Weak transcription	NH-A	brain
6	chr12:105822400-105826400	Enhancers	Fetal Lung	lung
7	chr12:105822400-105827200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr12:105822600-105827200	Weak transcription	HMEC	breast
9	chr12:105824000-105827000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr12:105824200-105827000	Weak transcription	NHEK	skin
11	chr12:105824200-105828000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr12:105824400-105827200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr12:105825400-105826400	Enhancers	HUVEC	blood vessel
14	chr12:105825800-105827200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr12:105825800-105827400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr12:105825800-105827400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr12:105825800-105827400	Weak transcription	HSMM	muscle
18	chr12:105826000-105827800	Weak transcription	HSMMtube	muscle
19	chr12:105826000-105829600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links