Variant report

Variant	rs9559654
Chromosome Location	chr13:110428923-110428924
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11841502	0.85[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap];0.95[YRI][hapmap];0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12853546	0.91[ASN][1000 genomes]
rs12864020	0.90[ASN][1000 genomes]
rs12874640	0.90[ASN][1000 genomes]
rs12876234	0.91[CEU][hapmap];0.88[CHB][hapmap];0.91[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1414317	0.90[ASN][1000 genomes]
rs1967852	0.81[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs1974134	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34701391	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34911155	0.90[ASN][1000 genomes]
rs35887251	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4372569	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4771645	0.91[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap];0.96[YRI][hapmap];0.85[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs4771646	0.91[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4771647	0.90[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4773088	0.82[JPT][hapmap];0.80[AFR][1000 genomes]
rs4773091	0.91[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4773093	0.90[ASN][1000 genomes]
rs4773094	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs55824992	0.90[ASN][1000 genomes]
rs56123456	0.84[AFR][1000 genomes]
rs56920445	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9555633	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9555635	0.90[ASN][1000 genomes]
rs9559648	0.82[JPT][hapmap];0.84[AFR][1000 genomes]
rs9559650	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9559656	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9559657	0.90[ASN][1000 genomes]
rs9559658	0.88[ASN][1000 genomes]
rs9559659	0.90[ASN][1000 genomes]
rs9559660	0.81[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv826788	chr13:110381750-110469062	Flanking Bivalent TSS/Enh Genic enhancers Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv826789	chr13:110387268-110473524	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv826790	chr13:110395165-110463032	Weak transcription Genic enhancers Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
4	nsv826791	chr13:110397733-110462553	Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	nsv826792	chr13:110398678-110462209	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
6	nsv1047427	chr13:110412864-110446417	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
7	nsv826793	chr13:110423187-110448628	Active TSS Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
8	nsv826794	chr13:110424916-110448628	Transcr. at gene 5' and 3' Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	n/a
9	nsv826795	chr13:110425465-110448628	Enhancers Active TSS Bivalent/Poised TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:110397200-110430400	Weak transcription	NHLF	lung
2	chr13:110401800-110430800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr13:110403200-110430600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr13:110406200-110429400	Weak transcription	Primary B cells from cord blood	blood
5	chr13:110408600-110430400	Weak transcription	Colonic Mucosa	Colon
6	chr13:110409000-110431200	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr13:110409400-110429800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr13:110409400-110430200	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr13:110413400-110430400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr13:110413600-110430800	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr13:110416000-110430800	Weak transcription	Fetal Kidney	kidney
12	chr13:110417000-110432400	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr13:110417200-110430400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr13:110417200-110431600	Weak transcription	Fetal Muscle Leg	muscle
15	chr13:110417400-110429400	Weak transcription	Small Intestine	intestine
16	chr13:110417400-110430200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr13:110417600-110430400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr13:110417600-110430400	Weak transcription	Thymus	Thymus
19	chr13:110417600-110430600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr13:110417800-110429400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr13:110417800-110430200	Weak transcription	Fetal Thymus	thymus
22	chr13:110419600-110429400	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr13:110419600-110429400	Weak transcription	Fetal Brain Male	brain
24	chr13:110419600-110429600	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr13:110420000-110429000	Weak transcription	Fetal Brain Female	brain
26	chr13:110420400-110429200	Weak transcription	Right Atrium	heart
27	chr13:110420800-110429000	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr13:110422000-110429000	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr13:110423000-110433400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr13:110423200-110430200	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr13:110423200-110430400	Weak transcription	NHDF-Ad	bronchial
32	chr13:110423200-110433200	Weak transcription	Gastric	stomach
33	chr13:110423400-110429400	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr13:110423600-110431000	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr13:110424000-110429000	Weak transcription	Fetal Lung	lung
36	chr13:110424200-110430000	Weak transcription	Duodenum Mucosa	Duodenum
37	chr13:110424600-110429000	Weak transcription	Brain Germinal Matrix	brain
38	chr13:110424800-110429200	Weak transcription	Aorta	Aorta
39	chr13:110424800-110430200	Weak transcription	Fetal Intestine Large	intestine
40	chr13:110424800-110430800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr13:110424800-110431000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr13:110424800-110433200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr13:110425000-110429000	Weak transcription	Primary T cells from cord blood	blood
44	chr13:110425000-110429000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr13:110425000-110429000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr13:110425000-110429000	Weak transcription	Left Ventricle	heart
47	chr13:110425000-110429000	Weak transcription	HSMMtube	muscle
48	chr13:110425000-110429600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
49	chr13:110425000-110429800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr13:110425000-110430000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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