Variant report

Variant	rs13225244
Chromosome Location	chr7:26439210-26439211
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	chr7:26438821..26439447-chr7:26540126..26541048,3	MCF-7	breast:
2	chr7:26438613..26440865-chr7:26441029..26444147,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SNX10-2	chr7:26438866-26439274	ENSG00000214870

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12700728	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13225178	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13226088	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13240682	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13241914	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13242356	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13243741	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13245210	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1731282	1.00[AFR][1000 genomes]
rs34611800	1.00[AFR][1000 genomes]
rs36062166	1.00[AFR][1000 genomes]
rs71532933	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73072216	1.00[AFR][1000 genomes]
rs73072219	1.00[AFR][1000 genomes]
rs73072220	1.00[AFR][1000 genomes]
rs73072293	1.00[AFR][1000 genomes]
rs73072295	1.00[AFR][1000 genomes]
rs73074106	1.00[AFR][1000 genomes]
rs73074107	1.00[AFR][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	nsv1029596	chr7:26302739-26737913	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
2	nsv538804	chr7:26302739-26737913	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	esv3374116	chr7:26436952-26439800	Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:26437200-26439400	Active TSS	ES-I3 Cell Line	embryonic stem cell
2	chr7:26437400-26439400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr7:26437400-26439600	Active TSS	Pancreatic Islets	Pancreatic Islet
4	chr7:26437600-26439400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr7:26437600-26439400	Active TSS	HUES64 Cell Line	embryonic stem cell
6	chr7:26437800-26439400	Active TSS	Fetal Brain Female	brain
7	chr7:26437800-26439400	Active TSS	Fetal Kidney	kidney
8	chr7:26438000-26439600	Active TSS	Brain Inferior Temporal Lobe	brain
9	chr7:26438400-26439400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
10	chr7:26438400-26439400	Flanking Active TSS	HUVEC	blood vessel
11	chr7:26438600-26439400	Flanking Active TSS	Fetal Stomach	stomach
12	chr7:26438600-26439600	Flanking Active TSS	Primary hematopoietic stem cells	blood
13	chr7:26438600-26439800	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr7:26438600-26440000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr7:26438600-26440200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr7:26438600-26440200	Flanking Active TSS	Fetal Brain Male	brain
17	chr7:26438800-26439400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
18	chr7:26438800-26439600	Enhancers	Spleen	Spleen
19	chr7:26438800-26439600	Flanking Active TSS	K562	blood
20	chr7:26438800-26440000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
21	chr7:26439000-26439400	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
22	chr7:26439000-26439600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
23	chr7:26439000-26439600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr7:26439000-26439600	Enhancers	Fetal Heart	heart
25	chr7:26439000-26439600	Bivalent Enhancer	Fetal Thymus	thymus
26	chr7:26439000-26439800	Enhancers	Cortex derived primary cultured neurospheres	brain
27	chr7:26439000-26452200	Weak transcription	Ovary	ovary
28	chr7:26439000-26452800	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr7:26439000-26453000	Weak transcription	Lung	lung
30	chr7:26439200-26439400	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr7:26439200-26439400	Enhancers	iPS-15b Cell Line	embryonic stem cell
32	chr7:26439200-26439400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr7:26439200-26439400	Bivalent Enhancer	Brain Anterior Caudate	brain
34	chr7:26439200-26439400	Enhancers	Colonic Mucosa	Colon
35	chr7:26439200-26439400	Enhancers	Rectal Mucosa Donor 29	rectum
36	chr7:26439200-26439400	Enhancers	Rectal Smooth Muscle	rectum
37	chr7:26439200-26439400	Enhancers	Skeletal Muscle Male	skeletal muscle
38	chr7:26439200-26439400	Active TSS	Stomach Smooth Muscle	stomach
39	chr7:26439200-26439400	Bivalent Enhancer	HepG2	liver
40	chr7:26439200-26439600	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr7:26439200-26439600	Active TSS	HUES48 Cell Line	embryonic stem cell
42	chr7:26439200-26439600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
43	chr7:26439200-26439600	Enhancers	Breast Myoepithelial Primary Cells	Breast
44	chr7:26439200-26439600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr7:26439200-26439600	Bivalent Enhancer	Brain Cingulate Gyrus	brain
46	chr7:26439200-26439600	Enhancers	Fetal Intestine Large	intestine
47	chr7:26439200-26439600	Enhancers	Fetal Intestine Small	intestine
48	chr7:26439200-26439600	Flanking Active TSS	Fetal Lung	lung
49	chr7:26439200-26439600	Enhancers	A549	lung
50	chr7:26439200-26439800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived

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