Variant report

Variant	rs6425365
Chromosome Location	chr1:175879489-175879490
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10753110	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10913096	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10913099	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2140169	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs28672898	0.85[AMR][1000 genomes]
rs7556669	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[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	esv33328	chr1:175446583-175910001	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	esv1823794	chr1:175869554-176311778	Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
3	esv3344055	chr1:175873040-175887908	Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6425365	TNN	cis	cerebellum	SCAN

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:175863200-175906400	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr1:175871400-175879600	Weak transcription	Psoas Muscle	Psoas
3	chr1:175874400-175945600	Weak transcription	A549	lung
4	chr1:175875000-175882800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr1:175877000-175879600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr1:175877400-175894600	Weak transcription	HSMM	muscle
7	chr1:175877800-175902400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr1:175878600-175879600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr1:175879400-175879800	ZNF genes & repeats	Primary B cells from cord blood	blood
10	chr1:175879400-175879800	ZNF genes & repeats	Fetal Stomach	stomach
11	chr1:175879400-175880000	ZNF genes & repeats	Primary T killer naive cells fromperipheralblood	blood
12	chr1:175879400-175880000	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr1:175879400-175880000	ZNF genes & repeats	Fetal Lung	lung
14	chr1:175879400-175880000	ZNF genes & repeats	Fetal Muscle Trunk	muscle
15	chr1:175879400-175880000	ZNF genes & repeats	Pancreas	Pancrea
16	chr1:175879400-175880000	Strong transcription	HSMMtube	muscle
17	chr1:175879400-175880200	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr1:175879400-175880200	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr1:175879400-175880200	ZNF genes & repeats	Left Ventricle	heart
20	chr1:175879400-175880200	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
21	chr1:175879400-175880200	ZNF genes & repeats	Skeletal Muscle Male	skeletal muscle
22	chr1:175879400-175880400	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr1:175879400-175880400	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr1:175879400-175880400	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr1:175879400-175880400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr1:175879400-175880400	ZNF genes & repeats	Aorta	Aorta
27	chr1:175879400-175880400	ZNF genes & repeats	Brain Dorsolateral Prefrontal Cortex	brain
28	chr1:175879400-175880400	ZNF genes & repeats	Duodenum Mucosa	Duodenum
29	chr1:175879400-175880400	ZNF genes & repeats	Lung	lung
30	chr1:175879400-175880400	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
31	chr1:175879400-175880600	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
32	chr1:175879400-175880600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
33	chr1:175879400-175880600	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
34	chr1:175879400-175880600	ZNF genes & repeats	Fetal Muscle Leg	muscle
35	chr1:175879400-175881000	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr1:175879400-175881000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr1:175879400-175881200	ZNF genes & repeats	Primary T cells from cord blood	blood
38	chr1:175879400-175881400	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr1:175879400-175882000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr1:175879400-175882600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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