Variant report

Variant	rs1574283
Chromosome Location	chr4:122685321-122685322
allele	C/T
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	POLR2A	chr4:122685288-122685337	A549	lung:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TMEM155-1	chr4:122685286-122685462	NONHSAT098150

Variant related genes	Relation type
ENSG00000226757	TF binding region

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10001422	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10011665	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10470915	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10471016	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11930525	1.00[EUR][1000 genomes]
rs11937861	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11947643	0.89[EUR][1000 genomes]
rs17051397	0.88[EUR][1000 genomes]
rs17051398	0.90[EUR][1000 genomes]
rs28515183	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28676474	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3903026	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4077754	0.85[EUR][1000 genomes]
rs4309856	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4508913	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4522884	0.90[EUR][1000 genomes]
rs4571354	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56030020	0.81[EUR][1000 genomes]
rs56221685	0.87[EUR][1000 genomes]
rs57312551	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs58127039	0.97[EUR][1000 genomes]
rs59796939	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61665948	0.85[EUR][1000 genomes]
rs6534322	0.86[EUR][1000 genomes]
rs6823340	0.87[EUR][1000 genomes]
rs6825926	0.81[EUR][1000 genomes]
rs6858061	0.87[EUR][1000 genomes]
rs72913994	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72915905	0.89[EUR][1000 genomes]
rs73844293	0.87[EUR][1000 genomes]
rs73844294	0.87[EUR][1000 genomes]
rs7661218	0.87[EUR][1000 genomes]
rs7684547	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817261	chr4:122085173-123020068	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv997539	chr4:122544104-123274266	Genic enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	nsv530157	chr4:122557302-123248756	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	nsv461635	chr4:122633535-122720999	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv595357	chr4:122633535-122720999	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:122680600-122685600	Weak transcription	Osteobl	bone
2	chr4:122683800-122685600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr4:122684800-122685400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
4	chr4:122684800-122685600	Bivalent Enhancer	Fetal Stomach	stomach
5	chr4:122684800-122686400	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr4:122685000-122685400	Bivalent Enhancer	H9 Cell Line	embryonic stem cell
7	chr4:122685000-122685400	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
8	chr4:122685000-122685400	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
9	chr4:122685000-122685400	Active TSS	Muscle Satellite Cultured Cells	--
10	chr4:122685000-122685400	Active TSS	Fetal Heart	heart
11	chr4:122685000-122685600	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr4:122685000-122685800	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
13	chr4:122685000-122687000	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
14	chr4:122685200-122685400	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr4:122685200-122685400	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr4:122685200-122685400	Flanking Bivalent TSS/Enh	Fetal Lung	lung
17	chr4:122685200-122685400	Active TSS	Placenta	Placenta
18	chr4:122685200-122685400	Bivalent/Poised TSS	Skeletal Muscle Male	skeletal muscle
19	chr4:122685200-122685600	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
20	chr4:122685200-122685600	Bivalent Enhancer	HUVEC	blood vessel
21	chr4:122685200-122685800	Bivalent Enhancer	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr4:122685200-122685800	Enhancers	Spleen	Spleen
23	chr4:122685200-122686200	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
24	chr4:122685200-122686400	Bivalent Enhancer	Fetal Thymus	thymus
25	chr4:122685200-122686600	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
26	chr4:122685200-122686600	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
27	chr4:122685200-122686600	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
28	chr4:122685200-122686600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
29	chr4:122685200-122686600	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells	blood
30	chr4:122685200-122686600	Bivalent/Poised TSS	Fetal Kidney	kidney
31	chr4:122685200-122686800	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
32	chr4:122685200-122686800	Active TSS	HSMM	muscle
33	chr4:122685200-122686800	Active TSS	NHLF	lung

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