Variant report

Variant	rs11622710
Chromosome Location	chr14:56260044-56260045
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KTN1-AS1-1	chr14:56260015-56260078	ENSG00000258791.2
2	lnc-KTN1-AS1-1	chr14:56259443-56260174	ENSG00000258791.2

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10134507	0.88[EUR][1000 genomes]
rs11620875	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11621835	0.80[EUR][1000 genomes]
rs11622627	0.96[CEU][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes]
rs11622641	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11624167	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11624516	0.96[EUR][1000 genomes]
rs11625571	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11625869	0.82[EUR][1000 genomes]
rs11626057	0.80[EUR][1000 genomes]
rs11627629	1.00[CEU][hapmap];0.88[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11628040	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12890121	0.81[EUR][1000 genomes]
rs17253841	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17832467	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1999705	0.95[EUR][1000 genomes]
rs1999706	0.95[EUR][1000 genomes]
rs2105058	0.83[EUR][1000 genomes]
rs2152287	0.83[EUR][1000 genomes]
rs2342594	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2342595	0.96[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34096981	0.83[EUR][1000 genomes]
rs34421003	0.95[EUR][1000 genomes]
rs34540577	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35290945	0.80[EUR][1000 genomes]
rs35527253	0.81[EUR][1000 genomes]
rs35559254	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs36096896	0.81[EUR][1000 genomes]
rs36149160	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs36188950	0.96[EUR][1000 genomes]
rs4601950	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs55788205	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs55837858	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs57658601	0.95[EUR][1000 genomes]
rs61975563	0.81[EUR][1000 genomes]
rs61975579	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs61977779	0.86[ASN][1000 genomes]
rs61977780	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61977781	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61977782	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61977785	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs999817	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832804	chr14:56083850-56277632	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv901966	chr14:56160904-56436203	Weak transcription Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv901970	chr14:56183127-56265176	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv901971	chr14:56183127-56265176	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv901976	chr14:56192577-56265176	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv901977	chr14:56213392-56492996	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:56249000-56260800	Weak transcription	K562	blood
2	chr14:56256400-56261800	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr14:56257400-56263000	Enhancers	Hela-S3	cervix
4	chr14:56257600-56271600	Weak transcription	Gastric	stomach
5	chr14:56258200-56261200	Weak transcription	A549	lung
6	chr14:56258600-56260400	Weak transcription	Stomach Mucosa	stomach
7	chr14:56258600-56260800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr14:56259000-56261200	Weak transcription	HUVEC	blood vessel
9	chr14:56259600-56260800	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr14:56260000-56260200	Enhancers	Spleen	Spleen

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links