Variant report

Variant	rs7692551
Chromosome Location	chr4:151094955-151094956
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TCF12	chr4:151094252-151095026	SK-N-SH	brain:	n/a	n/a
2	POLR2A	chr4:151094423-151095547	H1-neurons	neurons:	n/a	n/a
3	POLR2A	chr4:151094418-151095087	H1-neurons	neurons:	n/a	n/a
4	REST	chr4:151094334-151095800	H1-neurons	neurons:	n/a	chr4:151095606-151095624
5	REST	chr4:151094197-151095930	H1-neurons	neurons:	n/a	chr4:151095606-151095624

Variant related genes	Relation type
DCLK2	TF binding region

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12501888	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs12512965	1.00[GIH][hapmap]
rs12513356	1.00[ASW][hapmap];1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[GIH][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap]
rs4240358	0.86[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4254749	0.89[ASN][1000 genomes]
rs4292314	0.94[CHB][hapmap];0.84[CHD][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs4320118	0.89[ASN][1000 genomes]
rs4835621	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58654970	0.81[EUR][1000 genomes]
rs72617457	0.81[EUR][1000 genomes]
rs7679888	1.00[ASW][hapmap];0.80[CHB][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026797	chr4:150246932-151217137	Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv932022	chr4:150831733-151419552	Enhancers Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv1032689	chr4:150971003-151316856	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv537300	chr4:150971003-151316856	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7692551	LAYN	trans	lymphoblastoid	seeQTL

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:151045200-151099000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr4:151081400-151096600	Weak transcription	Fetal Muscle Trunk	muscle
3	chr4:151085400-151097400	Weak transcription	Ovary	ovary
4	chr4:151089200-151097000	Weak transcription	Aorta	Aorta
5	chr4:151091600-151104800	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr4:151092000-151097000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr4:151092200-151096800	Weak transcription	NHDF-Ad	bronchial
8	chr4:151093000-151096800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr4:151094000-151095000	Enhancers	Duodenum Smooth Muscle	Duodenum
10	chr4:151094000-151095000	Enhancers	HUVEC	blood vessel
11	chr4:151094000-151095200	Enhancers	Brain Anterior Caudate	brain
12	chr4:151094000-151095400	Enhancers	Brain Inferior Temporal Lobe	brain
13	chr4:151094000-151095400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr4:151094000-151095400	Enhancers	Fetal Heart	heart
15	chr4:151094000-151095400	Enhancers	Fetal Stomach	stomach
16	chr4:151094000-151095600	Enhancers	Brain Angular Gyrus	brain
17	chr4:151094000-151095600	Enhancers	A549	lung
18	chr4:151094000-151095800	Enhancers	HSMMtube	muscle
19	chr4:151094200-151095000	Enhancers	Colon Smooth Muscle	Colon
20	chr4:151094200-151095200	Enhancers	Fetal Kidney	kidney
21	chr4:151094200-151095200	Enhancers	Rectal Smooth Muscle	rectum
22	chr4:151094200-151095400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr4:151094200-151095400	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr4:151094200-151095400	Enhancers	Right Ventricle	heart
25	chr4:151094200-151095400	Enhancers	Stomach Smooth Muscle	stomach
26	chr4:151094200-151095600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr4:151094200-151095600	Enhancers	Brain Cingulate Gyrus	brain
28	chr4:151094200-151095600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
29	chr4:151094200-151095600	Enhancers	Brain Substantia Nigra	brain
30	chr4:151094200-151095600	Enhancers	Fetal Lung	lung
31	chr4:151094200-151095600	Enhancers	NH-A	brain
32	chr4:151094200-151095600	Enhancers	Osteobl	bone
33	chr4:151094200-151095800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr4:151094200-151095800	Enhancers	Brain Hippocampus Middle	brain
35	chr4:151094200-151096000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr4:151094200-151096000	Enhancers	Fetal Brain Male	brain
37	chr4:151094200-151096000	Enhancers	Left Ventricle	heart
38	chr4:151094200-151098200	Enhancers	Fetal Muscle Leg	muscle
39	chr4:151094400-151095000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr4:151094400-151095200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr4:151094400-151095200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr4:151094400-151095400	Enhancers	Right Atrium	heart
43	chr4:151094400-151095600	Enhancers	NHLF	lung
44	chr4:151094400-151095800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr4:151094600-151095000	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr4:151094600-151095000	Enhancers	Brain Germinal Matrix	brain
47	chr4:151094600-151095200	Enhancers	Adipose Nuclei	Adipose
48	chr4:151094600-151095400	Enhancers	HSMM	muscle
49	chr4:151094600-151095600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr4:151094600-151095600	Enhancers	Muscle Satellite Cultured Cells	--

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