Variant report

Variant	rs17004604
Chromosome Location	chr21:45105708-45105709
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr21:45105070..45107899-chr21:45137956..45140399,2	MCF-7	breast:
2	chr21:45103862..45106671-chr21:45138223..45140782,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000160209	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11908893	0.88[YRI][hapmap];1.00[AMR][1000 genomes]
rs11909619	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11911560	0.88[YRI][hapmap];1.00[AMR][1000 genomes]
rs17004588	0.88[YRI][hapmap];1.00[AMR][1000 genomes]
rs17004600	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17004601	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17004602	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61733779	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs62226936	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv913873	chr21:44879869-45142427	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv834106	chr21:44992387-45109489	Strong transcription Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA	15 gene(s)	inside rSNPs	diseases
3	nsv913874	chr21:45041790-45191005	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
4	nsv531544	chr21:45071371-45202912	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
5	nsv1066728	chr21:45089877-45131723	Enhancers Genic enhancers Strong transcription Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
6	nsv531545	chr21:45095397-45395904	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS 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	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:45080600-45122400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr21:45080800-45121800	Weak transcription	Fetal Heart	heart
3	chr21:45080800-45122600	Weak transcription	Small Intestine	intestine
4	chr21:45082000-45107200	Strong transcription	Primary B cells from peripheral blood	blood
5	chr21:45082800-45116600	Strong transcription	Primary T cells from cord blood	blood
6	chr21:45086000-45117200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr21:45086400-45110600	Weak transcription	Stomach Mucosa	stomach
8	chr21:45088400-45117200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
9	chr21:45088600-45116400	Strong transcription	Dnd41	blood
10	chr21:45088600-45117000	Strong transcription	Primary T helper cells fromperipheralblood	blood
11	chr21:45088800-45118200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr21:45089000-45117000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr21:45089000-45117000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr21:45089000-45117000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr21:45089200-45115000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr21:45089200-45116000	Strong transcription	Fetal Thymus	thymus
17	chr21:45089200-45116200	Strong transcription	Primary T helper cells PMA-I stimulated	--
18	chr21:45089200-45117000	Strong transcription	Primary T cells fromperipheralblood	blood
19	chr21:45089200-45117200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr21:45089400-45116600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr21:45089600-45116400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr21:45089600-45116400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr21:45089800-45107200	Strong transcription	Fetal Muscle Leg	muscle
24	chr21:45089800-45107800	Strong transcription	Monocytes-CD14+_RO01746	blood
25	chr21:45089800-45108000	Strong transcription	Primary monocytes fromperipheralblood	blood
26	chr21:45089800-45117000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr21:45089800-45117200	Strong transcription	Cortex derived primary cultured neurospheres	brain
28	chr21:45090000-45107800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr21:45090400-45106600	Strong transcription	HSMM	muscle
30	chr21:45093800-45112200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr21:45093800-45117000	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr21:45094000-45117600	Strong transcription	Fetal Intestine Small	intestine
33	chr21:45094200-45116200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr21:45094600-45114600	Strong transcription	Brain Substantia Nigra	brain
35	chr21:45094600-45116200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
36	chr21:45094600-45116600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr21:45094600-45117200	Strong transcription	Fetal Stomach	stomach
38	chr21:45094800-45107800	Strong transcription	Thymus	Thymus
39	chr21:45094800-45116400	Strong transcription	HUES6 Cell Line	embryonic stem cell
40	chr21:45094800-45117200	Strong transcription	HUES48 Cell Line	embryonic stem cell
41	chr21:45094800-45122000	Weak transcription	Right Atrium	heart
42	chr21:45095000-45115000	Strong transcription	Fetal Brain Female	brain
43	chr21:45095200-45116400	Strong transcription	H1 Cell Line	embryonic stem cell
44	chr21:45095400-45117000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
45	chr21:45097400-45108000	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr21:45097600-45109800	Weak transcription	Fetal Brain Male	brain
47	chr21:45099200-45116200	Strong transcription	Primary T helper naive cells from peripheral blood	blood
48	chr21:45099600-45109200	Strong transcription	ES-I3 Cell Line	embryonic stem cell
49	chr21:45099600-45115400	Strong transcription	Duodenum Mucosa	Duodenum
50	chr21:45099800-45107000	Strong transcription	Placenta	Placenta

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