Variant report

Variant	rs28496034
Chromosome Location	chr9:98278332-98278333
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:98276862..98280186-chr9:98636651..98639407,3	K562	blood:
2	chr9:98277796..98280674-chr9:98636940..98639822,3	K562	blood:
3	chr9:98078194..98081816-chr9:98277777..98279552,3	K562	blood:

Variant related genes	Relation type
ENSG00000158169	Chromatin interaction
ENSG00000175611	Chromatin interaction
ENSG00000182150	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10512248	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1355619	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1355620	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16909919	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2066829	0.81[ASN][1000 genomes]
rs2236407	0.81[ASN][1000 genomes]
rs2282042	0.82[ASN][1000 genomes]
rs2297086	0.81[ASN][1000 genomes]
rs2297088	0.81[ASN][1000 genomes]
rs28457763	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28495472	0.81[ASN][1000 genomes]
rs28504650	0.88[ASN][1000 genomes]
rs28536201	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28557305	0.82[ASN][1000 genomes]
rs28591501	0.87[EUR][1000 genomes]
rs28620668	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28629854	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3758302	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4448343	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][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	nsv531633	chr9:98078300-98431120	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	nsv831658	chr9:98152971-98342178	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv430083	chr9:98204245-98445645	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv824994	chr9:98239963-98314431	Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv824995	chr9:98243455-98326547	Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv824996	chr9:98245375-98283861	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98274600-98279600	Active TSS	Duodenum Mucosa	Duodenum
2	chr9:98275600-98278600	Weak transcription	Hela-S3	cervix
3	chr9:98277200-98279000	Bivalent/Poised TSS	Brain Germinal Matrix	brain
4	chr9:98277200-98280000	Active TSS	Fetal Kidney	kidney
5	chr9:98277400-98280000	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
6	chr9:98277400-98280200	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
7	chr9:98277600-98278400	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr9:98277600-98278400	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr9:98277600-98278400	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
10	chr9:98277600-98278400	Flanking Active TSS	Stomach Smooth Muscle	stomach
11	chr9:98277600-98279200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr9:98277600-98279400	Active TSS	Brain Angular Gyrus	brain
13	chr9:98277600-98279600	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr9:98277600-98279600	Active TSS	Sigmoid Colon	Sigmoid Colon
15	chr9:98277600-98279800	Active TSS	Ovary	ovary
16	chr9:98277600-98280200	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
17	chr9:98277800-98278400	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
18	chr9:98277800-98278400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
19	chr9:98277800-98278400	Flanking Bivalent TSS/Enh	Primary Natural Killer cells fromperipheralblood	blood
20	chr9:98277800-98278400	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr9:98277800-98278400	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr9:98277800-98278400	Flanking Bivalent TSS/Enh	Primary mononuclear cells fromperipheralblood	Blood
23	chr9:98277800-98278400	Flanking Active TSS	Adipose Nuclei	Adipose
24	chr9:98277800-98278400	Flanking Active TSS	Brain Hippocampus Middle	brain
25	chr9:98277800-98278400	Flanking Active TSS	Colonic Mucosa	Colon
26	chr9:98277800-98278400	Bivalent Enhancer	Fetal Brain Male	brain
27	chr9:98277800-98278400	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
28	chr9:98277800-98278400	Bivalent Enhancer	Fetal Thymus	thymus
29	chr9:98277800-98278400	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
30	chr9:98277800-98278800	Bivalent Enhancer	Placenta	Placenta
31	chr9:98277800-98279000	Flanking Active TSS	Right Ventricle	heart
32	chr9:98277800-98279200	Flanking Bivalent TSS/Enh	Thymus	Thymus
33	chr9:98277800-98279400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr9:98277800-98279400	Active TSS	HSMM	muscle
35	chr9:98277800-98279400	Active TSS	NHLF	lung
36	chr9:98277800-98279600	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
37	chr9:98277800-98279600	Active TSS	Gastric	stomach
38	chr9:98277800-98279800	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
39	chr9:98277800-98279800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
40	chr9:98277800-98279800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
41	chr9:98277800-98279800	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
42	chr9:98277800-98280200	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
43	chr9:98277800-98280200	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
44	chr9:98277800-98280200	Active TSS	Brain Cingulate Gyrus	brain
45	chr9:98277800-98280200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
46	chr9:98278000-98278400	Flanking Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr9:98278000-98278400	Flanking Bivalent TSS/Enh	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr9:98278000-98278400	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr9:98278000-98278400	Flanking Bivalent TSS/Enh	Primary B cells from cord blood	blood
50	chr9:98278000-98278400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells	blood

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