Variant report

Variant	rs10138869
Chromosome Location	chr14:39681157-39681158
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	chr14:39655751..39657346-chr14:39681052..39683372,2	K562	blood:
2	chr14:39680164..39682554-chr14:39734526..39737073,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MIA2-1	chr14:39680985-39681459	NONHSAT036526

Variant related genes	Relation type
ENSG00000150527	Chromatin interaction
ENSG00000258941	Chromatin interaction
ENSG00000258940	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10131617	0.87[CHB][hapmap];0.96[JPT][hapmap]
rs10133417	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs10134365	0.87[CHB][hapmap];0.95[JPT][hapmap]
rs10136285	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10136309	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10137352	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs10137905	0.85[JPT][hapmap]
rs10149495	0.98[EUR][1000 genomes]
rs10151659	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs10162550	0.91[JPT][hapmap]
rs10872920	0.86[JPT][hapmap]
rs11157053	0.86[JPT][hapmap]
rs11157058	0.91[JPT][hapmap]
rs11620695	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs11621330	0.86[JPT][hapmap]
rs11626679	0.89[JPT][hapmap]
rs11627580	0.91[JPT][hapmap]
rs12434140	0.87[JPT][hapmap]
rs12587713	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs12894855	0.83[JPT][hapmap]
rs1594842	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs17109021	0.86[CHB][hapmap];0.95[JPT][hapmap]
rs17109028	0.86[CHB][hapmap];0.95[JPT][hapmap]
rs17109073	0.91[JPT][hapmap]
rs1897792	0.95[JPT][hapmap]
rs1950952	0.87[JPT][hapmap]
rs1998194	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs2082635	0.87[JPT][hapmap]
rs2093217	0.98[EUR][1000 genomes]
rs2274396	0.91[JPT][hapmap]
rs2274399	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs4902528	0.82[JPT][hapmap]
rs4902569	0.81[JPT][hapmap]
rs4902570	0.81[JPT][hapmap]
rs6571906	0.97[ASN][1000 genomes]
rs6571919	0.87[JPT][hapmap]
rs7140164	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7143393	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7143646	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs7145048	0.95[ASN][1000 genomes]
rs7145343	0.97[ASN][1000 genomes]
rs7145345	0.97[ASN][1000 genomes]
rs7146289	0.97[ASN][1000 genomes]
rs7148150	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs7151608	0.82[JPT][hapmap]
rs7153482	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs7156264	1.00[CEU][hapmap];0.84[JPT][hapmap];0.98[EUR][1000 genomes]
rs7157271	0.95[ASN][1000 genomes]
rs7160180	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs74048714	0.98[EUR][1000 genomes]
rs74048717	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8004716	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs8009490	0.94[ASN][1000 genomes]
rs8011619	0.81[ASN][1000 genomes]
rs8018717	0.86[JPT][hapmap]
rs956109	0.87[JPT][hapmap]

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	nsv1246	chr14:39656597-39701520	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription	TF binding region Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv1053133	chr14:39657535-39770729	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:39674000-39705400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr14:39679800-39682000	Enhancers	A549	lung
3	chr14:39680400-39682400	Enhancers	Primary neutrophils fromperipheralblood	blood
4	chr14:39680600-39681800	Bivalent Enhancer	HepG2	liver
5	chr14:39681000-39681400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr14:39681000-39681600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr14:39681000-39681600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr14:39681000-39681800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr14:39681000-39682000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr14:39681000-39682000	Enhancers	Hela-S3	cervix
11	chr14:39681000-39682000	Enhancers	HMEC	breast

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