Variant report

Variant	rs13132604
Chromosome Location	chr4:15422545-15422546
allele	G/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	CTCF	chr4:15422540-15422690	HCPEpiC	choroid plexus:	n/a	n/a
2	MYC	chr4:15422432-15422623	MCF10A-Er-Src	breast:	n/a	chr4:15422515-15422524
3	CTCF	chr4:15422500-15422650	HMF	breast:	n/a	n/a
4	CTCF	chr4:15422500-15422650	HPAF	blood vessel:	n/a	n/a
5	FOS	chr4:15422350-15422689	MCF10A-Er-Src	breast:	n/a	chr4:15422515-15422525 chr4:15422517-15422524 chr4:15422512-15422523 chr4:15422515-15422525 chr4:15422516-15422524 chr4:15422516-15422524 chr4:15422515-15422525
6	CTCF	chr4:15422420-15422570	HMEC	breast:	n/a	n/a
7	STAT3	chr4:15422352-15422689	MCF10A-Er-Src	breast:	n/a	n/a
8	CTCF	chr4:15422478-15422752	IMR90	lung:	n/a	n/a
9	CTCF	chr4:15422520-15422670	NHDF-neo	bronchial:	n/a	n/a
10	CTCF	chr4:15422520-15422670	WI-38	lung:	n/a	n/a
11	CTCF	chr4:15422500-15422650	HCFaa	heart:	n/a	n/a
12	RAD21	chr4:15422467-15422706	SK-N-SH_RA	brain:	n/a	chr4:15422608-15422622
13	CTCF	chr4:15422480-15422630	HA-sp	spinal cord:	n/a	n/a
14	MAFK	chr4:15422476-15422645	H1-hESC	embryonic stem cell:	n/a	n/a
15	RAD21	chr4:15422524-15422720	Hela-S3	cervix:	n/a	chr4:15422608-15422622
16	FOS	chr4:15422385-15422696	MCF10A-Er-Src	breast:	n/a	chr4:15422515-15422525 chr4:15422517-15422524 chr4:15422512-15422523 chr4:15422515-15422525 chr4:15422516-15422524 chr4:15422516-15422524 chr4:15422515-15422525
17	MAZ	chr4:15422533-15422572	HepG2	liver:	n/a	n/a
18	CTCF	chr4:15422540-15422690	NHDF-neo	bronchial:	n/a	n/a
19	JUND	chr4:15422366-15422611	H1-hESC	embryonic stem cell:	n/a	chr4:15422515-15422525 chr4:15422517-15422524 chr4:15422512-15422523 chr4:15422515-15422525 chr4:15422516-15422524 chr4:15422516-15422524 chr4:15422515-15422525
20	CTCF	chr4:15422520-15422670	HBMEC	blood vessel:	n/a	n/a
21	CTCF	chr4:15422440-15422590	HA-sp	spinal cord:	n/a	n/a
22	FOS	chr4:15422332-15422678	MCF10A-Er-Src	breast:	n/a	chr4:15422515-15422525 chr4:15422517-15422524 chr4:15422512-15422523 chr4:15422515-15422525 chr4:15422516-15422524 chr4:15422516-15422524 chr4:15422515-15422525
23	RAD21	chr4:15422422-15422747	IMR90	lung:	n/a	chr4:15422608-15422622
24	STAT3	chr4:15422329-15422752	MCF10A-Er-Src	breast:	n/a	n/a
25	FOS	chr4:15422350-15422722	MCF10A-Er-Src	breast:	n/a	chr4:15422515-15422525 chr4:15422517-15422524 chr4:15422512-15422523 chr4:15422515-15422525 chr4:15422516-15422524 chr4:15422516-15422524 chr4:15422515-15422525
26	NANOG	chr4:15422523-15422777	H1-hESC	embryonic stem cell:	n/a	n/a
27	CTCF	chr4:15422500-15422650	AG09309	skin:	n/a	n/a
28	STAT3	chr4:15422372-15422684	MCF10A-Er-Src	breast:	n/a	n/a
29	CTCF	chr4:15422460-15422610	AG04450	lung:	n/a	n/a
30	CTCF	chr4:15422520-15422670	HCPEpiC	choroid plexus:	n/a	n/a

Variant related genes	Relation type
ENSG00000251379	TF binding region

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10002931	0.84[EUR][1000 genomes]
rs10003338	0.85[EUR][1000 genomes]
rs10032941	0.82[EUR][1000 genomes]
rs10212844	0.84[EUR][1000 genomes]
rs10212901	0.84[EUR][1000 genomes]
rs10213628	0.84[EUR][1000 genomes]
rs1024758	0.96[CEU][hapmap];0.90[CHB][hapmap];0.84[JPT][hapmap];0.89[YRI][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1024759	0.87[CHB][hapmap];0.84[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10461112	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1048037	0.84[CEU][hapmap]
rs10488970	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11934015	0.84[EUR][1000 genomes]
rs11937671	0.84[EUR][1000 genomes]
rs12233742	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13104095	0.91[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13106702	0.85[EUR][1000 genomes]
rs13114788	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13120744	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13123050	0.90[ASN][1000 genomes]
rs13123785	0.92[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13124324	0.84[EUR][1000 genomes]
rs13124984	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13129124	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13132007	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13132446	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13138481	1.00[CEU][hapmap];0.95[CHB][hapmap];0.84[JPT][hapmap];0.89[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13138554	0.88[ASN][1000 genomes]
rs16891929	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16891934	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16891939	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16891945	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17469724	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1990524	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2192355	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2192364	0.84[EUR][1000 genomes]
rs28376639	0.84[EUR][1000 genomes]
rs28561808	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2872704	0.84[EUR][1000 genomes]
rs34028526	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34351987	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34352292	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34400909	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34496443	0.90[ASN][1000 genomes]
rs35301498	0.90[ASN][1000 genomes]
rs35465107	0.88[ASN][1000 genomes]
rs35539860	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35866305	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35971217	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3797006	0.96[CEU][hapmap];0.90[CHB][hapmap];0.89[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3822296	0.84[EUR][1000 genomes]
rs58479200	0.90[ASN][1000 genomes]
rs59684117	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61240629	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62289285	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6449138	0.84[EUR][1000 genomes]
rs66696244	0.89[ASN][1000 genomes]
rs67391897	0.90[ASN][1000 genomes]
rs68012715	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6828721	0.84[EUR][1000 genomes]
rs6855244	0.84[EUR][1000 genomes]
rs71601473	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71601477	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs722235	0.88[ASN][1000 genomes]
rs7442554	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7681816	0.84[EUR][1000 genomes]
rs7687272	0.84[EUR][1000 genomes]
rs7690471	0.84[EUR][1000 genomes]
rs7697778	0.84[EUR][1000 genomes]
rs9991652	0.84[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3448986	chr4:14928802-15805558	Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15416800-15429000	Weak transcription	Fetal Lung	lung
2	chr4:15418000-15423200	Enhancers	Ovary	ovary
3	chr4:15418200-15423200	Enhancers	Colon Smooth Muscle	Colon
4	chr4:15418400-15422600	Weak transcription	Right Atrium	heart
5	chr4:15419000-15428600	Weak transcription	Rectal Smooth Muscle	rectum
6	chr4:15419800-15428600	Weak transcription	Primary monocytes fromperipheralblood	blood
7	chr4:15420000-15422800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr4:15420800-15428800	Weak transcription	Fetal Stomach	stomach
9	chr4:15421400-15423800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr4:15421600-15422600	Enhancers	Placenta Amnion	Placenta Amnion
11	chr4:15421600-15423200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr4:15421800-15422600	Enhancers	NHLF	lung
13	chr4:15421800-15422800	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr4:15421800-15422800	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr4:15421800-15422800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr4:15421800-15422800	Enhancers	Muscle Satellite Cultured Cells	--
17	chr4:15421800-15422800	Enhancers	Osteobl	bone
18	chr4:15421800-15423000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
19	chr4:15421800-15423000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr4:15421800-15423000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr4:15421800-15423000	Enhancers	Brain Anterior Caudate	brain
22	chr4:15421800-15423000	Enhancers	HSMM	muscle
23	chr4:15421800-15423200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
24	chr4:15421800-15423200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr4:15421800-15423200	Enhancers	Brain Cingulate Gyrus	brain
26	chr4:15421800-15423200	Enhancers	Brain Hippocampus Middle	brain
27	chr4:15421800-15423200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr4:15421800-15423200	Enhancers	Stomach Smooth Muscle	stomach
29	chr4:15422000-15422800	Enhancers	HUES64 Cell Line	embryonic stem cell
30	chr4:15422000-15422800	Enhancers	Brain Angular Gyrus	brain
31	chr4:15422000-15423000	Enhancers	Cortex derived primary cultured neurospheres	brain
32	chr4:15422000-15423200	Enhancers	ES-I3 Cell Line	embryonic stem cell
33	chr4:15422000-15423200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr4:15422000-15423200	Enhancers	HUES48 Cell Line	embryonic stem cell
35	chr4:15422000-15423200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr4:15422000-15423200	Enhancers	Brain Inferior Temporal Lobe	brain
37	chr4:15422000-15423200	Enhancers	HSMMtube	muscle
38	chr4:15422200-15422600	Enhancers	H9 Cell Line	embryonic stem cell
39	chr4:15422200-15422800	Enhancers	HMEC	breast
40	chr4:15422400-15423400	Enhancers	Aorta	Aorta

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