Variant report

Variant	rs10507479
Chromosome Location	chr13:39896620-39896621
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs12583159	1.00[ASN][1000 genomes]
rs12583780	0.88[ASN][1000 genomes]
rs12585448	0.88[ASN][1000 genomes]
rs12585451	0.88[ASN][1000 genomes]
rs12585476	1.00[ASN][1000 genomes]
rs1359193	0.84[GIH][hapmap]
rs17590635	1.00[ASN][1000 genomes]
rs17628476	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17628483	0.88[ASN][1000 genomes]
rs17628519	0.88[ASN][1000 genomes]
rs17628742	1.00[ASN][1000 genomes]
rs17628771	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1886171	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2324254	0.88[ASN][1000 genomes]
rs2324255	0.88[ASN][1000 genomes]
rs2324257	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2875296	0.88[ASN][1000 genomes]
rs2875298	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34485296	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs57158348	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58017746	0.88[ASN][1000 genomes]
rs58501663	1.00[ASN][1000 genomes]
rs59729125	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60535758	0.94[ASN][1000 genomes]
rs6563695	1.00[ASN][1000 genomes]
rs7336602	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73451012	0.85[ASN][1000 genomes]
rs73451015	0.87[ASN][1000 genomes]
rs73467374	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs768577	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8253	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];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:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:39891000-39899200	Weak transcription	Fetal Heart	heart
2	chr13:39892000-39897200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr13:39892200-39901200	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr13:39893000-39898400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr13:39893400-39897600	Enhancers	Adipose Nuclei	Adipose
6	chr13:39893600-39899000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr13:39893800-39899000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr13:39894200-39899000	Weak transcription	Right Ventricle	heart
9	chr13:39894200-39899000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr13:39894400-39899000	Weak transcription	Left Ventricle	heart
11	chr13:39894600-39898800	Weak transcription	Lung	lung
12	chr13:39894600-39899000	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr13:39894800-39897200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr13:39895200-39897200	Weak transcription	Fetal Stomach	stomach
15	chr13:39895400-39899000	Weak transcription	Right Atrium	heart
16	chr13:39895600-39898000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr13:39895800-39897000	Enhancers	Brain Hippocampus Middle	brain
18	chr13:39895800-39897600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr13:39895800-39897800	Enhancers	Brain Substantia Nigra	brain
20	chr13:39896000-39899200	Weak transcription	Fetal Muscle Leg	muscle
21	chr13:39896200-39897200	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr13:39896200-39897800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr13:39896200-39897800	Enhancers	Brain Anterior Caudate	brain
24	chr13:39896400-39897000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr13:39896400-39897600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr13:39896400-39897600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr13:39896600-39896800	Enhancers	iPS-15b Cell Line	embryonic stem cell
28	chr13:39896600-39897200	Active TSS	Brain Angular Gyrus	brain
29	chr13:39896600-39897200	Weak transcription	Ovary	ovary
30	chr13:39896600-39897400	Enhancers	Aorta	Aorta
31	chr13:39896600-39897400	Enhancers	Brain Cingulate Gyrus	brain
32	chr13:39896600-39897400	Enhancers	Fetal Lung	lung
33	chr13:39896600-39897600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr13:39896600-39897600	Weak transcription	Duodenum Smooth Muscle	Duodenum

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