Variant report

Variant	rs9825221
Chromosome Location	chr3:45989896-45989897
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs12330199	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs13315494	0.83[YRI][hapmap];1.00[EUR][1000 genomes]
rs13316935	1.00[EUR][1000 genomes]
rs13317076	1.00[EUR][1000 genomes]
rs2234359	1.00[EUR][1000 genomes]
rs28670183	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6774011	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6805727	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs6806348	0.81[AFR][1000 genomes]
rs7613756	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7618618	1.00[YRI][hapmap]
rs7626225	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7637926	1.00[EUR][1000 genomes]
rs9311389	1.00[EUR][1000 genomes]
rs9811093	1.00[EUR][1000 genomes]
rs9814852	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9824752	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9825682	0.83[AFR][1000 genomes]
rs9825804	0.83[AFR][1000 genomes]
rs9829016	1.00[AMR][1000 genomes]
rs9831791	1.00[EUR][1000 genomes]
rs9833683	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9835366	1.00[EUR][1000 genomes]
rs9838832	1.00[EUR][1000 genomes]
rs9841919	1.00[EUR][1000 genomes]
rs9856418	1.00[EUR][1000 genomes]
rs9858301	1.00[EUR][1000 genomes]
rs9859087	1.00[EUR][1000 genomes]
rs9860832	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs9865446	0.90[AFR][1000 genomes]
rs9870657	1.00[EUR][1000 genomes]
rs9875356	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9880627	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs9882765	1.00[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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv834678	chr3:45804294-46010256	Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv876736	chr3:45900621-46027410	Strong transcription Enhancers Transcr. at gene 5' and 3' Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:45959400-46009800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:45973800-45991400	Weak transcription	Brain Germinal Matrix	brain
3	chr3:45978800-45994400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr3:45979000-45993000	Weak transcription	Stomach Mucosa	stomach
5	chr3:45980800-46013400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
6	chr3:45981000-45990400	Weak transcription	Fetal Brain Female	brain
7	chr3:45981000-45993400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr3:45981000-45999400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr3:45981600-46025000	Strong transcription	Fetal Intestine Large	intestine
10	chr3:45982200-45999800	Strong transcription	Stomach Smooth Muscle	stomach
11	chr3:45982800-46000800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
12	chr3:45983200-46012400	Strong transcription	Monocytes-CD14+_RO01746	blood
13	chr3:45984000-45994000	Weak transcription	HMEC	breast
14	chr3:45984200-45994200	Strong transcription	Liver	Liver
15	chr3:45984400-45998200	Strong transcription	Left Ventricle	heart
16	chr3:45984400-46000800	Weak transcription	Psoas Muscle	Psoas
17	chr3:45986200-45990600	Genic enhancers	Skeletal Muscle Male	skeletal muscle
18	chr3:45986200-45993800	Strong transcription	Adipose Nuclei	Adipose
19	chr3:45986200-45998200	Strong transcription	Brain Substantia Nigra	brain
20	chr3:45986200-46006800	Strong transcription	Fetal Intestine Small	intestine
21	chr3:45986200-46007600	Strong transcription	Fetal Stomach	stomach
22	chr3:45986400-45990600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr3:45986400-45991400	Strong transcription	Right Ventricle	heart
24	chr3:45986400-45997000	Strong transcription	Pancreas	Pancrea
25	chr3:45986400-45997200	Strong transcription	Brain Inferior Temporal Lobe	brain
26	chr3:45986400-46001400	Weak transcription	A549	lung
27	chr3:45986400-46006200	Strong transcription	Fetal Muscle Leg	muscle
28	chr3:45986400-46006800	Strong transcription	Fetal Muscle Trunk	muscle
29	chr3:45986400-46007600	Strong transcription	Duodenum Smooth Muscle	Duodenum
30	chr3:45986400-46012200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr3:45986400-46026600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr3:45986600-45990600	Strong transcription	Primary T cells from cord blood	blood
33	chr3:45986600-45991000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
34	chr3:45986600-45992000	Strong transcription	Gastric	stomach
35	chr3:45986600-45997000	Strong transcription	H9 Cell Line	embryonic stem cell
36	chr3:45986600-45997000	Strong transcription	Brain Angular Gyrus	brain
37	chr3:45986600-45997400	Strong transcription	Brain Cingulate Gyrus	brain
38	chr3:45986600-46009000	Strong transcription	Primary B cells from cord blood	blood
39	chr3:45986600-46012000	Strong transcription	Primary monocytes fromperipheralblood	blood
40	chr3:45986600-46026800	Strong transcription	HUES48 Cell Line	embryonic stem cell
41	chr3:45986800-46012200	Strong transcription	Primary B cells from peripheral blood	blood
42	chr3:45987000-45990000	Strong transcription	Rectal Mucosa Donor 29	rectum
43	chr3:45987000-45990200	Strong transcription	ES-I3 Cell Line	embryonic stem cell
44	chr3:45987000-45997600	Strong transcription	Cortex derived primary cultured neurospheres	brain
45	chr3:45987200-45991000	Strong transcription	Colonic Mucosa	Colon
46	chr3:45987200-46013600	Strong transcription	Primary hematopoietic stem cells	blood
47	chr3:45987200-46027200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr3:45987400-45990200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr3:45987400-46026600	Strong transcription	HUES6 Cell Line	embryonic stem cell
50	chr3:45987600-45990600	Strong transcription	Sigmoid Colon	Sigmoid Colon

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