Variant report

Variant	rs12585476
Chromosome Location	chr13:39910983-39910984
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LHFP-1	chr13:39910408-39911246	XLOC_010576
2	lnc-LHFP-1	chr13:39910408-39911240	XLOC_010576

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10507479	1.00[ASN][1000 genomes]
rs12428000	0.82[EUR][1000 genomes]
rs12583159	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12583780	0.88[ASN][1000 genomes]
rs12585448	0.88[ASN][1000 genomes]
rs12585451	0.88[ASN][1000 genomes]
rs17590635	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17628476	0.88[ASN][1000 genomes]
rs17628483	0.88[ASN][1000 genomes]
rs17628519	0.88[ASN][1000 genomes]
rs17628742	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17628771	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1886171	1.00[ASN][1000 genomes]
rs2147130	0.82[EUR][1000 genomes]
rs2181759	0.81[YRI][hapmap]
rs2324254	0.88[ASN][1000 genomes]
rs2324255	0.88[ASN][1000 genomes]
rs2324257	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2875296	0.88[ASN][1000 genomes]
rs2875298	1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs34485296	0.82[ASN][1000 genomes]
rs57158348	0.89[ASN][1000 genomes]
rs57251095	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58017746	0.88[ASN][1000 genomes]
rs58501663	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59729125	1.00[ASN][1000 genomes]
rs60535758	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6563695	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7322148	0.82[EUR][1000 genomes]
rs7332991	0.82[YRI][hapmap]
rs7336602	0.96[ASN][1000 genomes]
rs73451012	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73451015	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73467374	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs74044033	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs768577	0.91[ASN][1000 genomes]
rs7990125	0.82[CEU][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7998423	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs8253	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2754118	chr13:39347702-40222644	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1054600	chr13:39801283-40545027	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
3	nsv1036674	chr13:39841482-40008117	Bivalent Enhancer Genic enhancers Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:39904200-39923600	Weak transcription	Ovary	ovary
2	chr13:39907400-39915600	Weak transcription	Left Ventricle	heart
3	chr13:39910400-39912000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr13:39910600-39911400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr13:39910600-39922400	Weak transcription	Aorta	Aorta
6	chr13:39910600-39924400	Weak transcription	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links