Variant report

Variant	rs11897498
Chromosome Location	chr2:63078755-63078756
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11901070	0.84[CEU][hapmap];0.91[YRI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs17027450	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs17027529	1.00[YRI][hapmap]
rs17408037	0.85[CEU][hapmap]
rs17473098	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs17474231	1.00[CEU][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes]
rs17577380	0.84[AFR][1000 genomes]
rs2054836	0.90[CEU][hapmap];0.81[YRI][hapmap]
rs2068312	1.00[YRI][hapmap]
rs2102517	0.91[AFR][1000 genomes]
rs41363353	0.84[CEU][hapmap];0.85[EUR][1000 genomes]
rs56078239	0.84[EUR][1000 genomes]
rs57093504	0.86[AFR][1000 genomes]
rs60575419	0.84[AFR][1000 genomes]
rs72807574	0.88[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs72807581	0.85[EUR][1000 genomes]
rs72807582	0.83[EUR][1000 genomes]
rs72807583	0.83[EUR][1000 genomes]
rs72807585	0.85[EUR][1000 genomes]
rs72807586	0.82[EUR][1000 genomes]
rs72807589	0.86[EUR][1000 genomes]
rs72888951	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[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	nsv535767	chr2:62461582-63413596	Bivalent Enhancer Strong transcription Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	esv3417336	chr2:62957866-63749654	Strong transcription Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv428041	chr2:63027947-63206574	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1006848	chr2:63061816-63631407	Weak transcription Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:63020600-63082000	Weak transcription	Pancreas	Pancrea
2	chr2:63031000-63083000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr2:63031400-63082000	Weak transcription	Thymus	Thymus
4	chr2:63040600-63082000	Weak transcription	Lung	lung
5	chr2:63046400-63101800	Weak transcription	Brain Angular Gyrus	brain
6	chr2:63050600-63091800	Weak transcription	Brain Cingulate Gyrus	brain
7	chr2:63052000-63099600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr2:63052200-63098200	Weak transcription	Hela-S3	cervix
9	chr2:63054600-63099800	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr2:63054800-63091600	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr2:63055000-63082000	Weak transcription	Esophagus	oesophagus
12	chr2:63056400-63081800	Weak transcription	NHLF	lung
13	chr2:63060800-63081000	Weak transcription	Left Ventricle	heart
14	chr2:63060800-63081800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr2:63061000-63080400	Weak transcription	Aorta	Aorta
16	chr2:63061200-63080800	Weak transcription	Psoas Muscle	Psoas
17	chr2:63061200-63115200	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr2:63061400-63080400	Weak transcription	Rectal Smooth Muscle	rectum
19	chr2:63061400-63102000	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr2:63061600-63082000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr2:63061800-63080800	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr2:63062000-63080600	Weak transcription	Brain Germinal Matrix	brain
23	chr2:63062000-63081200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr2:63062000-63082400	Weak transcription	HMEC	breast
25	chr2:63062000-63093000	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr2:63062200-63080600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr2:63063000-63081800	Weak transcription	Fetal Stomach	stomach
28	chr2:63071200-63097200	Strong transcription	HepG2	liver
29	chr2:63072000-63086200	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr2:63072200-63082800	Weak transcription	Primary T cells from cord blood	blood
31	chr2:63072200-63083400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr2:63072600-63101800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr2:63072800-63080600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr2:63072800-63083600	Weak transcription	Right Ventricle	heart
35	chr2:63073400-63080400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr2:63073400-63080400	Weak transcription	Ovary	ovary
37	chr2:63073400-63080800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr2:63073400-63080800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr2:63073400-63083800	Weak transcription	Fetal Heart	heart
40	chr2:63073400-63093000	Weak transcription	Primary B cells from cord blood	blood
41	chr2:63073600-63080200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr2:63073600-63080400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr2:63073600-63080400	Weak transcription	Fetal Brain Male	brain
44	chr2:63073600-63080600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr2:63073600-63083200	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr2:63073800-63080400	Weak transcription	HSMM	muscle
47	chr2:63073800-63080600	Weak transcription	Fetal Muscle Leg	muscle
48	chr2:63073800-63080800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr2:63073800-63080800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr2:63073800-63082000	Weak transcription	Fetal Lung	lung

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