Variant report

Variant	rs7146055
Chromosome Location	chr14:55965724-55965725
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:55964950..55967727-chr14:56010356..56012905,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KTN1-3	chr14:55964856-55966219	NONHSAT037010

Extended variants
information (count: 46 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1009714	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10132888	0.82[EUR][1000 genomes]
rs10873089	0.88[ASN][1000 genomes]
rs11623934	0.84[ASN][1000 genomes]
rs11627013	0.82[EUR][1000 genomes]
rs11628083	0.80[EUR][1000 genomes]
rs11848294	0.81[EUR][1000 genomes]
rs1188070	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1188074	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1188079	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12433615	0.89[ASN][1000 genomes]
rs12434857	0.85[ASN][1000 genomes]
rs12434870	0.85[ASN][1000 genomes]
rs12434901	0.90[ASN][1000 genomes]
rs12436071	0.89[ASN][1000 genomes]
rs12587011	0.90[ASN][1000 genomes]
rs12590017	0.82[EUR][1000 genomes]
rs12880292	0.90[ASN][1000 genomes]
rs12886190	0.82[EUR][1000 genomes]
rs12886931	0.85[ASN][1000 genomes]
rs1307316	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17128515	0.89[ASN][1000 genomes]
rs2147117	0.86[EUR][1000 genomes]
rs2147118	0.86[EUR][1000 genomes]
rs2147120	0.82[EUR][1000 genomes]
rs2181740	0.86[EUR][1000 genomes]
rs28450395	0.89[ASN][1000 genomes]
rs28707364	0.82[EUR][1000 genomes]
rs36013160	0.82[EUR][1000 genomes]
rs4566068	0.82[EUR][1000 genomes]
rs4901577	0.82[EUR][1000 genomes]
rs56324335	0.89[ASN][1000 genomes]
rs58935064	0.89[ASN][1000 genomes]
rs6573035	0.82[EUR][1000 genomes]
rs7141027	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv901958	chr14:55822095-56045411	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv901960	chr14:55853724-56085130	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	nsv901961	chr14:55853724-56101879	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
4	nsv901962	chr14:55862956-56101879	Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
5	nsv901963	chr14:55871452-56085130	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv901964	chr14:55871452-56101879	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
7	nsv564874	chr14:55879685-56027815	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
8	nsv1051564	chr14:55895610-56130788	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
9	nsv542103	chr14:55895610-56130788	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
10	nsv1047054	chr14:55922287-56035579	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	nsv1037161	chr14:55928030-56039353	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs7146055	KTN1	cis	parietal	SCAN
rs7146055	CDKN3	cis	cerebellum	SCAN
rs7146055	CNIH	cis	cerebellum	SCAN
rs7146055	KTN1	cis	cerebellum	SCAN
rs7146055	RPL13AP3	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:55965200-55965800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr14:55965200-55967600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr14:55965200-55971400	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr14:55965400-55965800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
5	chr14:55965400-55967000	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr14:55965600-55966000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr14:55965600-55966600	Enhancers	Fetal Heart	heart
8	chr14:55965600-55967000	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr14:55965600-55967400	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr14:55965600-55967600	Enhancers	HUES48 Cell Line	embryonic stem cell

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