Variant report

Variant	rs5762919
Chromosome Location	chr22:29363344-29363345
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs12169126	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12627758	0.93[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs16986814	0.85[CEU][hapmap]
rs16986873	0.81[EUR][1000 genomes]
rs41341948	0.85[GIH][hapmap]
rs4823000	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs5752839	0.87[CEU][hapmap];0.92[JPT][hapmap];0.82[TSI][hapmap]
rs5752842	0.85[CEU][hapmap];0.92[JPT][hapmap];0.81[EUR][1000 genomes]
rs5752851	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs5762891	0.85[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap]
rs5762893	1.00[JPT][hapmap];0.82[TSI][hapmap]
rs5762900	0.85[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap]
rs5762906	1.00[CEU][hapmap];0.81[CHB][hapmap];0.92[JPT][hapmap];0.82[TSI][hapmap]
rs5762907	0.85[CEU][hapmap];0.92[JPT][hapmap]
rs5762925	0.92[LWK][hapmap];0.93[MKK][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes]
rs5762930	0.86[LWK][hapmap];1.00[MKK][hapmap];0.85[YRI][hapmap];0.88[AFR][1000 genomes]
rs5762931	0.92[LWK][hapmap];1.00[MKK][hapmap];0.85[YRI][hapmap];0.87[AFR][1000 genomes]
rs61697201	0.90[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs725281	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.86[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs7286026	0.85[CEU][hapmap]
rs7288513	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap]
rs7290364	0.85[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap]
rs8140640	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9306461	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs9625622	0.85[CEU][hapmap]
rs9625645	0.85[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap]
rs9625657	0.85[CEU][hapmap];0.82[TSI][hapmap];0.81[EUR][1000 genomes]
rs974370	0.93[CHB][hapmap];0.92[JPT][hapmap];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1064079	chr22:29065528-29456059	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
2	nsv531586	chr22:29252132-29902266	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:29348200-29365000	Weak transcription	Duodenum Mucosa	Duodenum
2	chr22:29349200-29365400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr22:29349200-29371800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr22:29349200-29371800	Weak transcription	HSMM	muscle
5	chr22:29350000-29372800	Weak transcription	Aorta	Aorta
6	chr22:29354800-29364800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr22:29354800-29365600	Weak transcription	Lung	lung
8	chr22:29355200-29365400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr22:29355400-29363600	Weak transcription	Fetal Stomach	stomach
10	chr22:29355400-29364800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr22:29355400-29365000	Weak transcription	Right Atrium	heart
12	chr22:29355400-29365400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr22:29355400-29372800	Weak transcription	Stomach Smooth Muscle	stomach
14	chr22:29355800-29364600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr22:29356000-29365400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr22:29356800-29366400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr22:29357600-29364800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr22:29357800-29364800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr22:29358400-29369400	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr22:29358600-29365000	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr22:29358600-29365200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr22:29358800-29364800	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr22:29358800-29372200	Weak transcription	Fetal Kidney	kidney
24	chr22:29359200-29372000	Weak transcription	Brain Substantia Nigra	brain
25	chr22:29359600-29373000	Weak transcription	Fetal Intestine Large	intestine
26	chr22:29359800-29372000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr22:29360000-29364800	Weak transcription	Gastric	stomach
28	chr22:29360000-29365000	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr22:29360400-29364800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr22:29360600-29365000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
31	chr22:29360800-29364000	Weak transcription	Right Ventricle	heart
32	chr22:29360800-29364800	Weak transcription	Brain Anterior Caudate	brain
33	chr22:29361200-29364800	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr22:29361200-29364800	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr22:29361200-29364800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr22:29361200-29364800	Weak transcription	Psoas Muscle	Psoas
37	chr22:29361200-29365000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr22:29361200-29365000	Weak transcription	Pancreas	Pancrea
39	chr22:29361200-29365400	Weak transcription	Esophagus	oesophagus
40	chr22:29361200-29371600	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr22:29361400-29364800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
42	chr22:29361600-29364800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr22:29361600-29364800	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr22:29361600-29364800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr22:29361600-29364800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr22:29361600-29373000	Weak transcription	Fetal Intestine Small	intestine
47	chr22:29361600-29373000	Weak transcription	Ovary	ovary
48	chr22:29362000-29364800	Weak transcription	HUES6 Cell Line	embryonic stem cell
49	chr22:29362400-29365200	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr22:29363000-29363600	Enhancers	Liver	Liver

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