Variant report

Variant	rs57566178
Chromosome Location	chr14:105507382-105507383
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:105503195..105506061-chr14:105506902..105508657,2	MCF-7	breast:
2	chr14:105483268..105491279-chr14:105504611..105511531,14	MCF-7	breast:
3	chr14:105499189..105502656-chr14:105506829..105510545,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000170779	Chromatin interaction

Extended variants
information (count: 83 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs10135843	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10137404	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10138346	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10143367	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10148938	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10150496	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10151729	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10151804	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11160828	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11844494	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11845844	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11848041	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11848239	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12232105	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12433546	0.85[AFR][1000 genomes]
rs12878000	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12891766	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12891996	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12892110	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12892633	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12895547	0.86[ASN][1000 genomes]
rs12897558	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2289454	0.86[ASN][1000 genomes]
rs28675197	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28707248	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34011356	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34252654	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34490246	0.81[ASN][1000 genomes]
rs34536859	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34860972	0.87[ASN][1000 genomes]
rs34971388	0.84[ASN][1000 genomes]
rs35153311	0.84[ASN][1000 genomes]
rs35545162	0.91[ASN][1000 genomes]
rs35572164	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35980174	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs36014607	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4073698	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4334223	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4340255	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4424849	0.82[AFR][1000 genomes]
rs4492978	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58218156	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6576067	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs71421897	0.85[ASN][1000 genomes]
rs71423803	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7144401	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7145565	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7151958	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7153549	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8008344	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8008615	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8008683	0.85[EUR][1000 genomes]
rs8008979	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8008984	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8013233	0.81[EUR][1000 genomes]
rs8845	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:27 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1828345	chr14:105100787-105803170	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
2	nsv542225	chr14:105133688-105803170	Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
3	nsv542227	chr14:105157572-105803170	Enhancers Flanking Active TSS Genic enhancers Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	147 gene(s)	inside rSNPs	diseases
4	nsv917106	chr14:105339195-105803170	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	94 gene(s)	inside rSNPs	diseases
5	nsv456457	chr14:105404384-105555396	Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
6	nsv566141	chr14:105404384-105555396	Weak transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
7	nsv902421	chr14:105410183-105574843	Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
8	nsv902422	chr14:105420215-105803170	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
9	nsv1052190	chr14:105423761-105722653	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
10	nsv902423	chr14:105430890-105803170	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
11	nsv1042303	chr14:105435649-105633544	Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
12	nsv456458	chr14:105435649-105690092	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
13	nsv566150	chr14:105435649-105690092	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
14	nsv902424	chr14:105436222-105803170	Genic enhancers Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	86 gene(s)	inside rSNPs	diseases
15	nsv566151	chr14:105459140-105555396	Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
16	nsv456459	chr14:105459140-105617891	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
17	nsv566152	chr14:105459140-105617891	Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
18	nsv902425	chr14:105463936-105690092	Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
19	nsv983941	chr14:105485574-105534240	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
20	nsv9175	chr14:105496509-105688941	Enhancers Strong transcription Bivalent/Poised TSS Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
21	nsv902426	chr14:105500760-105537476	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
22	esv3322064	chr14:105504607-105508805	Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
23	esv3489336	chr14:105505107-105508505	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
24	esv3524286	chr14:105505432-105508280	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
25	esv3489337	chr14:105505557-105508055	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
26	esv3489338	chr14:105505557-105508055	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
27	nsv512381	chr14:105506245-105507628	Enhancers Weak transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs57566178	C14orf79	cis	Thyroid	GTEx
rs57566178	C14orf79	cis	Esophagus Mucosa	GTEx
rs57566178	C14orf79	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:105497800-105507800	Weak transcription	K562	blood
2	chr14:105500600-105508000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr14:105500600-105512000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr14:105500800-105507600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr14:105504800-105512000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr14:105506200-105507600	Weak transcription	A549	lung
7	chr14:105506800-105508000	Weak transcription	Fetal Heart	heart
8	chr14:105507000-105507400	Weak transcription	HepG2	liver
9	chr14:105507000-105509600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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