Variant report

Variant	rs13425139
Chromosome Location	chr2:145115611-145115612
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:144984610..144988238-chr2:145113704..145117959,3	K562	blood:
2	chr2:145087843..145092879-chr2:145115226..145118993,8	K562	blood:
3	chr2:145105008..145111276-chr2:145112714..145119371,14	K562	blood:
4	chr2:145115526..145118238-chr2:145138850..145140731,2	K562	blood:
5	chr2:144906956..144909639-chr2:145115493..145118052,3	K562	blood:
6	chr2:145111347..145113912-chr2:145115328..145118079,3	K562	blood:
7	chr2:145113699..145118738-chr2:145123471..145132698,16	K562	blood:
8	chr2:144788513..144790266-chr2:145115282..145116823,2	K562	blood:
9	chr2:145098484..145104754-chr2:145115322..145118409,5	K562	blood:
10	chr2:145115526..145118622-chr2:145139231..145141891,3	K562	blood:
11	chr2:145082692..145092879-chr2:145114336..145120289,17	K562	blood:
12	chr2:145115490..145118490-chr2:145129844..145132475,4	K562	blood:
13	chr2:145115265..145117224-chr2:145119918..145123262,4	K562	blood:

No data

Variant related genes	Relation type
ENSG00000121964	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10167323	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10496962	0.92[EUR][1000 genomes]
rs12328646	0.86[ASW][hapmap]
rs12621625	1.00[ASN][1000 genomes]
rs13432930	0.81[ASW][hapmap]
rs1427654	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60227485	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532755	chr2:144631279-145270874	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv1006344	chr2:144657716-145334899	Bivalent Enhancer Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv535951	chr2:144657716-145334899	Enhancers Strong transcription Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv1067624	chr2:144657717-145425705	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv531413	chr2:144657717-145425705	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	nsv532756	chr2:144746353-145315596	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
7	nsv1008032	chr2:144840552-145234229	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
8	nsv997624	chr2:144906679-145294503	Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
9	nsv535952	chr2:144906679-145294503	Bivalent Enhancer Enhancers Active TSS Flanking Active TSS Strong transcription Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
10	nsv532757	chr2:144922143-145263446	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
11	nsv916172	chr2:144970681-145425713	Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
12	nsv948474	chr2:145035890-145436665	Enhancers Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS 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 miRNA target site	14 gene(s)	inside rSNPs	diseases
13	nsv1004937	chr2:145079535-145159021	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
14	nsv875261	chr2:145093066-145184666	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
15	nsv535953	chr2:145099512-145336083	ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:145108400-145116600	Weak transcription	Psoas Muscle	Psoas
2	chr2:145108400-145116600	Weak transcription	Spleen	Spleen
3	chr2:145108600-145116800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr2:145110000-145115800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr2:145110400-145116800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr2:145112600-145117600	Enhancers	NHDF-Ad	bronchial
7	chr2:145113200-145116600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr2:145113400-145116000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr2:145114000-145117600	Enhancers	NHLF	lung
10	chr2:145114000-145117800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr2:145114400-145115800	Weak transcription	Adipose Nuclei	Adipose
12	chr2:145114400-145116600	Weak transcription	Primary B cells from peripheral blood	blood
13	chr2:145115200-145116000	Enhancers	Osteobl	bone
14	chr2:145115200-145116600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr2:145115200-145117000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr2:145115200-145117000	Enhancers	HMEC	breast
17	chr2:145115200-145117200	Enhancers	NHEK	skin
18	chr2:145115200-145117400	Flanking Active TSS	GM12878-XiMat	blood
19	chr2:145115200-145117400	Enhancers	HUVEC	blood vessel
20	chr2:145115200-145117600	Enhancers	HSMMtube	muscle
21	chr2:145115200-145117600	Enhancers	NH-A	brain
22	chr2:145115200-145117800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr2:145115200-145117800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr2:145115200-145122000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr2:145115400-145115800	Enhancers	Ovary	ovary
26	chr2:145115400-145116000	Flanking Active TSS	A549	lung
27	chr2:145115400-145116600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr2:145115400-145117400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr2:145115400-145117600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
30	chr2:145115400-145117600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
31	chr2:145115400-145117600	Enhancers	HSMM	muscle
32	chr2:145115600-145115800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr2:145115600-145115800	Enhancers	Muscle Satellite Cultured Cells	--
34	chr2:145115600-145115800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr2:145115600-145115800	Enhancers	Brain Angular Gyrus	brain
36	chr2:145115600-145116000	Enhancers	Brain Inferior Temporal Lobe	brain
37	chr2:145115600-145116000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
38	chr2:145115600-145116600	Enhancers	Brain Cingulate Gyrus	brain
39	chr2:145115600-145116600	Enhancers	Brain Hippocampus Middle	brain
40	chr2:145115600-145116600	Enhancers	Brain Substantia Nigra	brain
41	chr2:145115600-145117000	Enhancers	Hela-S3	cervix
42	chr2:145115600-145117200	Flanking Active TSS	K562	blood

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