Variant report

Variant	rs11856580
Chromosome Location	chr15:59842507-59842508
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10152904	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11856554	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12902622	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12908589	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12914046	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17236671	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs28514722	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35384735	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35743616	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs36034625	0.83[AFR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4419005	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4775180	0.90[ASN][1000 genomes]
rs7179805	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8041216	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][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	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv1044442	chr15:59765724-59955587	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv542403	chr15:59765724-59955587	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv904279	chr15:59791666-59842927	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59835400-59844200	Enhancers	Rectal Mucosa Donor 31	rectum
2	chr15:59836400-59845400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr15:59839000-59847600	Weak transcription	Small Intestine	intestine
4	chr15:59839200-59843200	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr15:59840600-59843000	Enhancers	Rectal Mucosa Donor 29	rectum
6	chr15:59841000-59843600	Enhancers	Stomach Mucosa	stomach
7	chr15:59841000-59843800	Enhancers	Fetal Intestine Large	intestine
8	chr15:59841000-59844400	Enhancers	Fetal Intestine Small	intestine
9	chr15:59841400-59842600	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
10	chr15:59841400-59842600	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
11	chr15:59841400-59842800	Enhancers	H1 Cell Line	embryonic stem cell
12	chr15:59841400-59843400	Weak transcription	Colonic Mucosa	Colon
13	chr15:59841400-59848200	Enhancers	HepG2	liver
14	chr15:59841600-59842600	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
15	chr15:59841600-59842800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr15:59841600-59861600	Weak transcription	Gastric	stomach
17	chr15:59841800-59842800	Enhancers	Hela-S3	cervix
18	chr15:59842000-59843400	Enhancers	Primary hematopoietic stem cells short term culture	blood
19	chr15:59842200-59843600	Enhancers	Monocytes-CD14+_RO01746	blood
20	chr15:59842200-59843800	Enhancers	Primary monocytes fromperipheralblood	blood
21	chr15:59842200-59843800	Enhancers	A549	lung
22	chr15:59842400-59843000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
23	chr15:59842400-59843000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr15:59842400-59843200	Weak transcription	Duodenum Mucosa	Duodenum
25	chr15:59842400-59843400	Weak transcription	H9 Cell Line	embryonic stem cell

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