Variant report

Variant	rs9977465
Chromosome Location	chr21:46232267-46232268
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr21:46231802..46234012-chr21:46295564..46298055,2	K562	blood:
2	chr21:46231216..46239677-chr21:46289090..46295542,14	K562	blood:
3	chr21:46231904..46241990-chr21:46492035..46500735,28	K562	blood:
4	chr21:46231737..46233290-chr21:46275941..46278575,2	K562	blood:
5	chr21:46230804..46233614-chr21:46491481..46494002,2	MCF-7	breast:
6	chr21:46231789..46243695-chr21:46286819..46295664,23	MCF-7	breast:
7	chr21:46229937..46232595-chr21:46248336..46250833,2	MCF-7	breast:
8	chr21:46230539..46232494-chr21:46352107..46354258,2	K562	blood:
9	chr21:46231513..46241255-chr21:46492035..46497390,26	K562	blood:

No data

Variant related genes	Relation type
ENSG00000197381	Chromatin interaction
ENSG00000183255	Chromatin interaction
ENSG00000235374	Chromatin interaction
ENSG00000268856	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs13047692	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13047718	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13051119	0.92[EUR][1000 genomes]
rs13433413	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2294158	0.94[ASN][1000 genomes]
rs2838676	0.92[ASN][1000 genomes]
rs2838677	0.93[ASN][1000 genomes]
rs2838679	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2838693	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2838697	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2838698	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2838700	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34875321	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3788138	0.92[ASN][1000 genomes]
rs4818731	0.92[ASN][1000 genomes]
rs4818976	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4818977	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72613649	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8131444	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9306115	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9306116	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9637189	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9977676	0.92[ASN][1000 genomes]
rs9978131	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916258	chr21:45995986-46624705	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	102 gene(s)	inside rSNPs	diseases
2	nsv913956	chr21:46096964-46279505	Enhancers Bivalent Enhancer Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv1062245	chr21:46096964-46332587	Active TSS Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
4	nsv544478	chr21:46096964-46332587	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
5	nsv459298	chr21:46223847-46277968	Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
6	nsv587813	chr21:46223847-46277968	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
7	nsv913963	chr21:46223847-46277968	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
8	nsv913964	chr21:46223847-46298869	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS 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	33 gene(s)	inside rSNPs	diseases
9	nsv913962	chr21:46223847-46321172	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
10	nsv913965	chr21:46223847-46321172	Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
11	nsv1058550	chr21:46227163-46317934	Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
12	esv3373972	chr21:46228824-46233122	Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Enhancers	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
13	nsv913966	chr21:46229393-46261390	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	24 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	chr21:46222400-46236400	Weak transcription	Small Intestine	intestine
2	chr21:46222600-46234800	Weak transcription	Right Atrium	heart
3	chr21:46222600-46236400	Weak transcription	Stomach Mucosa	stomach
4	chr21:46222600-46237200	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr21:46222800-46236400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr21:46222800-46237200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr21:46223000-46232400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr21:46223000-46233600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr21:46223000-46233600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr21:46223000-46234200	Strong transcription	Placenta	Placenta
11	chr21:46223000-46236400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr21:46223000-46236400	Strong transcription	Fetal Stomach	stomach
13	chr21:46223200-46234000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr21:46223200-46234000	Strong transcription	Stomach Smooth Muscle	stomach
15	chr21:46223200-46234000	Strong transcription	NHLF	lung
16	chr21:46223200-46235200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
17	chr21:46223200-46235800	Strong transcription	Fetal Intestine Small	intestine
18	chr21:46223400-46233000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr21:46223400-46233800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr21:46223400-46233800	Strong transcription	Fetal Muscle Trunk	muscle
21	chr21:46223400-46234000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr21:46223400-46234000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr21:46223400-46234600	Strong transcription	Monocytes-CD14+_RO01746	blood
24	chr21:46223600-46232400	Strong transcription	Dnd41	blood
25	chr21:46223600-46233600	Strong transcription	Osteobl	bone
26	chr21:46223600-46234200	Strong transcription	Fetal Intestine Large	intestine
27	chr21:46223600-46235000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr21:46223800-46232600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr21:46223800-46234000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr21:46223800-46234200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr21:46223800-46234600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
32	chr21:46223800-46235600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr21:46224000-46234400	Strong transcription	Primary monocytes fromperipheralblood	blood
34	chr21:46224200-46233600	Strong transcription	Primary T cells from cord blood	blood
35	chr21:46224200-46234000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr21:46224200-46236600	Weak transcription	Psoas Muscle	Psoas
37	chr21:46224400-46236400	Weak transcription	Fetal Heart	heart
38	chr21:46224600-46234000	Strong transcription	Skeletal Muscle Male	skeletal muscle
39	chr21:46224600-46234000	Strong transcription	Skeletal Muscle Female	skeletal muscle
40	chr21:46224800-46233000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr21:46224800-46233600	Strong transcription	Primary T helper cells fromperipheralblood	blood
42	chr21:46224800-46234000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr21:46224800-46234000	Strong transcription	Fetal Thymus	thymus
44	chr21:46224800-46234200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr21:46224800-46234200	Strong transcription	Thymus	Thymus
46	chr21:46225000-46233800	Strong transcription	Fetal Muscle Leg	muscle
47	chr21:46225600-46233800	Strong transcription	Adipose Nuclei	Adipose
48	chr21:46225800-46234200	Strong transcription	Cortex derived primary cultured neurospheres	brain
49	chr21:46226400-46236400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
50	chr21:46227200-46232400	Weak transcription	A549	lung

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