Variant report

Variant	rs13360625
Chromosome Location	chr5:112242771-112242772
allele	A/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	chr5:112242762-112243286	GM12878	blood:	n/a	n/a
2	CTCF	chr5:112242406-112242771	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:112195332..112197808-chr5:112240725..112243513,2	K562	blood:

Variant related genes	Relation type
ENSG00000266499	TF binding region
ENSG00000153037	Chromatin interaction
ENSG00000272869	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10043337	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10050828	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10051508	0.80[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10056154	1.00[AMR][1000 genomes]
rs10071519	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10072974	1.00[AMR][1000 genomes]
rs10078107	0.90[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11241187	0.87[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12332080	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13354540	0.80[YRI][hapmap]
rs13357384	1.00[AFR][1000 genomes]
rs13358594	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13359728	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13362040	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13362565	1.00[AMR][1000 genomes]
rs28491687	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs369952	0.89[YRI][hapmap]
rs4705617	0.87[YRI][hapmap]
rs57793340	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029271	chr5:112113308-112325943	Strong transcription Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv529536	chr5:112174106-112269758	Genic enhancers Strong transcription Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv599394	chr5:112185491-112446323	Weak transcription Active TSS Strong transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv870231	chr5:112192379-112247084	Strong transcription Weak transcription Genic enhancers Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv1030103	chr5:112197662-112255712	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
6	nsv537863	chr5:112197662-112255712	Weak transcription Strong transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv1019756	chr5:112242315-112325943	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112206400-112242800	Weak transcription	Fetal Brain Male	brain
2	chr5:112211600-112256400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr5:112212200-112256400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr5:112212600-112251400	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr5:112215200-112255800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr5:112215800-112247200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr5:112221800-112256600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr5:112222000-112256400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr5:112223000-112243000	Weak transcription	Right Ventricle	heart
10	chr5:112223000-112245200	Weak transcription	Colonic Mucosa	Colon
11	chr5:112223000-112245200	Weak transcription	Rectal Smooth Muscle	rectum
12	chr5:112223000-112256400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr5:112223000-112256600	Weak transcription	Thymus	Thymus
14	chr5:112224800-112250600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr5:112225000-112251600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr5:112229600-112250000	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr5:112229600-112256600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr5:112230200-112251600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr5:112232000-112242800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr5:112232600-112242800	Weak transcription	Pancreas	Pancrea
21	chr5:112232600-112250200	Weak transcription	Stomach Mucosa	stomach
22	chr5:112232800-112242800	Weak transcription	Brain Substantia Nigra	brain
23	chr5:112233600-112246600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
24	chr5:112234200-112249400	Weak transcription	Fetal Heart	heart
25	chr5:112234400-112242800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr5:112234600-112246400	Weak transcription	HMEC	breast
27	chr5:112235200-112245200	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr5:112235600-112242800	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr5:112236400-112245200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr5:112236400-112245600	Weak transcription	Esophagus	oesophagus
31	chr5:112237000-112244600	Weak transcription	NHDF-Ad	bronchial
32	chr5:112237200-112249400	Weak transcription	K562	blood
33	chr5:112237400-112242800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr5:112237400-112254000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr5:112238200-112242800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
36	chr5:112238200-112242800	Weak transcription	Ovary	ovary
37	chr5:112238200-112245200	Weak transcription	Fetal Thymus	thymus
38	chr5:112238200-112249600	Weak transcription	Brain Germinal Matrix	brain
39	chr5:112238200-112251600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
40	chr5:112238400-112242800	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr5:112238400-112244800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr5:112238400-112251800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr5:112238400-112252800	Weak transcription	Small Intestine	intestine
44	chr5:112238400-112253800	Weak transcription	Placenta Amnion	Placenta Amnion
45	chr5:112238600-112242800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr5:112238600-112244800	Weak transcription	NHLF	lung
47	chr5:112238600-112245200	Weak transcription	Primary T helper cells PMA-I stimulated	--
48	chr5:112238600-112245200	Weak transcription	Colon Smooth Muscle	Colon
49	chr5:112238600-112245400	Weak transcription	A549	lung
50	chr5:112238600-112246400	Weak transcription	Aorta	Aorta

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