Variant report

Variant	rs13137712
Chromosome Location	chr4:144258574-144258575
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:144104818..144107585-chr4:144256509..144260468,4	MCF-7	breast:
2	chr4:144254658..144259448-chr4:144261105..144264742,6	MCF-7	breast:
3	chr4:144257935..144259880-chr4:144296110..144298167,2	MCF-7	breast:
4	chr4:144256474..144260869-chr4:144433151..144436933,4	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FREM3-6	chr4:144256418-144258970	NONHSAT098553

Variant related genes	Relation type
ENSG00000170185	Chromatin interaction
ENSG00000109458	Chromatin interaction
ENSG00000153147	Chromatin interaction
ENSG00000250326	Chromatin interaction
ENSG00000245112	Chromatin interaction
ENSG00000265623	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10461277	0.93[AMR][1000 genomes]
rs10461278	0.88[AMR][1000 genomes]
rs10461279	0.93[AMR][1000 genomes]
rs1108827	0.93[AMR][1000 genomes]
rs13104755	0.93[AMR][1000 genomes]
rs13105258	0.93[AMR][1000 genomes]
rs13107986	0.87[AMR][1000 genomes]
rs13111543	0.83[AMR][1000 genomes]
rs13118809	0.93[AMR][1000 genomes]
rs13127055	0.93[AMR][1000 genomes]
rs13130995	0.88[AMR][1000 genomes]
rs13141368	0.81[AMR][1000 genomes]
rs13145718	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28410377	0.81[AMR][1000 genomes]
rs34176541	0.93[AMR][1000 genomes]
rs34192902	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34198661	0.88[AMR][1000 genomes]
rs34225955	0.93[AMR][1000 genomes]
rs34234071	0.87[AMR][1000 genomes]
rs34398038	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34583666	0.87[AMR][1000 genomes]
rs34589296	0.93[AMR][1000 genomes]
rs34652171	0.93[AMR][1000 genomes]
rs34780033	0.83[AMR][1000 genomes]
rs35027946	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35095943	0.93[AMR][1000 genomes]
rs35305979	0.81[AMR][1000 genomes]
rs35549285	0.93[AMR][1000 genomes]
rs35607189	0.88[AMR][1000 genomes]
rs35909303	0.93[AMR][1000 genomes]
rs35971728	0.93[AMR][1000 genomes]
rs55693016	0.83[AMR][1000 genomes]
rs56085707	0.93[AMR][1000 genomes]
rs71610420	0.88[AMR][1000 genomes]
rs71610422	0.93[AMR][1000 genomes]
rs71610423	0.93[AMR][1000 genomes]
rs71610426	0.88[AMR][1000 genomes]
rs71610427	0.93[AMR][1000 genomes]
rs71610430	0.86[AMR][1000 genomes]
rs71610431	0.93[AMR][1000 genomes]
rs71610432	0.93[AMR][1000 genomes]
rs71610438	0.93[AMR][1000 genomes]
rs71610439	0.87[AMR][1000 genomes]
rs71610440	0.93[AMR][1000 genomes]
rs71610442	0.93[AMR][1000 genomes]
rs726022	0.83[AMR][1000 genomes]
rs7663712	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9637656	0.93[AMR][1000 genomes]
rs9991495	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033902	chr4:144114413-144285772	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	esv3332574	chr4:144239396-144259577	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	n/a
3	nsv1026110	chr4:144239825-144292148	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
4	esv3406126	chr4:144256927-144259675	Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:144256000-144259600	Active TSS	Fetal Kidney	kidney
2	chr4:144256200-144259000	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr4:144256600-144258600	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr4:144256600-144258600	Active TSS	Fetal Muscle Trunk	muscle
5	chr4:144256600-144258800	Active TSS	ES-I3 Cell Line	embryonic stem cell
6	chr4:144256600-144258800	Active TSS	iPS-18 Cell Line	embryonic stem cell
7	chr4:144256600-144258800	Active TSS	Liver	Liver
8	chr4:144256600-144258800	Active TSS	Hela-S3	cervix
9	chr4:144256600-144259000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr4:144256600-144259000	Active TSS	Skeletal Muscle Female	skeletal muscle
11	chr4:144256600-144259000	Active TSS	HMEC	breast
12	chr4:144256600-144259000	Active TSS	HUVEC	blood vessel
13	chr4:144256600-144259000	Active TSS	NH-A	brain
14	chr4:144256600-144259000	Active TSS	NHEK	skin
15	chr4:144256600-144259000	Active TSS	Osteobl	bone
16	chr4:144256600-144259200	Active TSS	H1 Cell Line	embryonic stem cell
17	chr4:144256600-144259200	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr4:144256600-144259200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr4:144256600-144259200	Active TSS	HUES64 Cell Line	embryonic stem cell
20	chr4:144256600-144259200	Active TSS	iPS-15b Cell Line	embryonic stem cell
21	chr4:144256600-144259200	Active TSS	iPS-20b Cell Line	embryonic stem cell
22	chr4:144256600-144259200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr4:144256600-144259200	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr4:144256600-144259200	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr4:144256600-144259200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr4:144256600-144259200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr4:144256600-144259400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
28	chr4:144256600-144259400	Active TSS	H9 Cell Line	embryonic stem cell
29	chr4:144256600-144259400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr4:144256600-144259400	Active TSS	Breast Myoepithelial Primary Cells	Breast
31	chr4:144256600-144259400	Active TSS	Primary T cells from cord blood	blood
32	chr4:144256600-144259400	Active TSS	Fetal Lung	lung
33	chr4:144256600-144259400	Active TSS	A549	lung
34	chr4:144256600-144259400	Active TSS	HSMMtube	muscle
35	chr4:144256600-144259600	Active TSS	HUES48 Cell Line	embryonic stem cell
36	chr4:144256600-144259600	Active TSS	HUES6 Cell Line	embryonic stem cell
37	chr4:144256600-144259600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr4:144256600-144259600	Active TSS	Psoas Muscle	Psoas
39	chr4:144256600-144259600	Active TSS	Rectal Smooth Muscle	rectum
40	chr4:144256600-144259600	Active TSS	Stomach Smooth Muscle	stomach
41	chr4:144256600-144259800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr4:144256600-144259800	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr4:144256600-144259800	Active TSS	Colon Smooth Muscle	Colon
44	chr4:144256600-144259800	Active TSS	Fetal Adrenal Gland	Adrenal Gland
45	chr4:144256600-144259800	Active TSS	Fetal Intestine Large	intestine
46	chr4:144256600-144259800	Active TSS	Ovary	ovary
47	chr4:144256600-144259800	Active TSS	Rectal Mucosa Donor 31	rectum
48	chr4:144256600-144259800	Active TSS	NHDF-Ad	bronchial
49	chr4:144256600-144260000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr4:144256600-144260200	Active TSS	Duodenum Smooth Muscle	Duodenum

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