Variant report

Variant	rs7590926
Chromosome Location	chr2:38893973-38893974
allele	C/G
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:38892007..38895113-chr2:38976994..38979857,4	K562	blood:
2	chr2:38824811..38832919-chr2:38891494..38898299,16	K562	blood:
3	chr2:38893888..38897011-chr2:38898419..38901251,3	K562	blood:
4	chr2:38825670..38832919-chr2:38891527..38903424,21	K562	blood:
5	chr2:38818005..38820191-chr2:38893287..38895221,2	K562	blood:
6	chr2:38777679..38779633-chr2:38893883..38895640,2	K562	blood:
7	chr2:38829496..38831232-chr2:38893143..38894875,2	MCF-7	breast:
8	chr2:38891861..38895889-chr2:38976029..38979857,7	K562	blood:

No data

Variant related genes	Relation type
ENSG00000115875	Chromatin interaction
ENSG00000235586	Chromatin interaction
ENSG00000152147	Chromatin interaction
ENSG00000232518	Chromatin interaction
ENSG00000143889	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11688977	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11689051	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12478924	0.94[EUR][1000 genomes]
rs12712609	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13011383	0.93[EUR][1000 genomes]
rs13029674	0.93[EUR][1000 genomes]
rs13387464	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13425086	0.95[EUR][1000 genomes]
rs2373424	0.94[EUR][1000 genomes]
rs28551538	0.93[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs34533539	0.85[EUR][1000 genomes]
rs3821023	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4670263	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4670882	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4670883	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6707543	0.85[EUR][1000 genomes]
rs6732137	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6736380	0.85[EUR][1000 genomes]
rs6744400	0.94[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs6761563	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7571326	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7574493	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7588762	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7590750	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7590835	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7597535	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][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	nsv916059	chr2:38332341-39119398	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	143 gene(s)	inside rSNPs	diseases
2	nsv9646	chr2:38358311-39082189	Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	141 gene(s)	inside rSNPs	diseases
3	nsv873882	chr2:38858669-38921498	Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv873883	chr2:38881106-38932777	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:38892600-38894000	Active TSS	Fetal Intestine Large	intestine
2	chr2:38892600-38894400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr2:38892800-38894000	Active TSS	HUES6 Cell Line	embryonic stem cell
4	chr2:38892800-38894000	Active TSS	Colon Smooth Muscle	Colon
5	chr2:38892800-38894000	Active TSS	Duodenum Smooth Muscle	Duodenum
6	chr2:38892800-38894000	Active TSS	Fetal Kidney	kidney
7	chr2:38892800-38894000	Active TSS	Fetal Stomach	stomach
8	chr2:38892800-38894000	Active TSS	Lung	lung
9	chr2:38892800-38894000	Active TSS	Sigmoid Colon	Sigmoid Colon
10	chr2:38892800-38894000	Bivalent/Poised TSS	HepG2	liver
11	chr2:38892800-38894200	Active TSS	H1 Cell Line	embryonic stem cell
12	chr2:38892800-38894200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr2:38892800-38894200	Flanking Active TSS	Primary B cells from peripheral blood	blood
14	chr2:38892800-38894200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
15	chr2:38892800-38894200	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr2:38892800-38894400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr2:38892800-38894400	Active TSS	HUES48 Cell Line	embryonic stem cell
18	chr2:38892800-38894400	Flanking Active TSS	Primary hematopoietic stem cells	blood
19	chr2:38892800-38894400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
20	chr2:38892800-38894400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
21	chr2:38892800-38894400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr2:38892800-38894400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr2:38892800-38894400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr2:38892800-38894400	Active TSS	Aorta	Aorta
25	chr2:38892800-38894400	Active TSS	Brain Anterior Caudate	brain
26	chr2:38892800-38894400	Active TSS	Brain Cingulate Gyrus	brain
27	chr2:38892800-38894400	Active TSS	Pancreatic Islets	Pancreatic Islet
28	chr2:38892800-38894400	Flanking Active TSS	Fetal Thymus	thymus
29	chr2:38892800-38894400	Active TSS	Ovary	ovary
30	chr2:38892800-38894400	Active TSS	Pancreas	Pancrea
31	chr2:38892800-38894400	Active TSS	Right Ventricle	heart
32	chr2:38892800-38894600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
33	chr2:38892800-38894600	Flanking Active TSS	GM12878-XiMat	blood
34	chr2:38892800-38894800	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr2:38892800-38895200	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
36	chr2:38892800-38895200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
37	chr2:38892800-38895400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr2:38892800-38895400	Active TSS	Right Atrium	heart
39	chr2:38892800-38895600	Flanking Active TSS	Primary T cells fromperipheralblood	blood
40	chr2:38893000-38894000	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr2:38893000-38894000	Active TSS	Stomach Mucosa	stomach
42	chr2:38893000-38894200	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr2:38893000-38894600	Flanking Active TSS	Primary B cells from cord blood	blood
44	chr2:38893200-38894000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr2:38893200-38894000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr2:38893200-38894000	Active TSS	Gastric	stomach
47	chr2:38893200-38894200	Flanking Active TSS	Brain Hippocampus Middle	brain
48	chr2:38893200-38894400	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
49	chr2:38893200-38894400	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
50	chr2:38893200-38894400	Flanking Active TSS	HSMM	muscle

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