Variant report

Variant	rs7028516
Chromosome Location	chr9:8463745-8463746
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10121697	0.95[CEU][hapmap];0.86[EUR][1000 genomes]
rs10122691	0.95[CHB][hapmap];0.93[JPT][hapmap];0.95[ASN][1000 genomes]
rs10758975	0.95[CEU][hapmap];0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10815880	1.00[CEU][hapmap];0.85[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10815881	1.00[CEU][hapmap];0.88[YRI][hapmap];0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10977124	0.80[CEU][hapmap];0.90[CHB][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12340424	0.94[CEU][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12349857	1.00[CEU][hapmap];0.86[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1359119	1.00[CEU][hapmap];0.85[JPT][hapmap];0.82[YRI][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1407972	0.95[CEU][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2296097	0.82[CEU][hapmap];0.91[CHB][hapmap];0.84[ASN][1000 genomes]
rs2296099	0.95[CEU][hapmap];0.85[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2296100	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7024486	0.82[CEU][hapmap];0.95[CHB][hapmap];0.93[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7028797	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7044441	0.95[ASN][1000 genomes]
rs7044709	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv8414	chr9:7827373-8511613	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1031472	chr9:8250901-8712547	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv1022796	chr9:8360729-9110046	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv892226	chr9:8435525-8522326	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv613289	chr9:8456020-8473169	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8418200-8476000	Weak transcription	Fetal Brain Male	brain
2	chr9:8419200-8491000	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr9:8420600-8466000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr9:8420600-8557600	Weak transcription	Aorta	Aorta
5	chr9:8422000-8464800	Weak transcription	Brain Germinal Matrix	brain
6	chr9:8424200-8485000	Weak transcription	Fetal Kidney	kidney
7	chr9:8430200-8465000	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr9:8434200-8485200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr9:8442200-8522200	Weak transcription	Liver	Liver
10	chr9:8447800-8468200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr9:8448000-8468200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr9:8448000-8494800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr9:8448400-8472800	Weak transcription	Fetal Stomach	stomach
14	chr9:8449000-8465000	Weak transcription	Fetal Brain Female	brain
15	chr9:8451400-8492000	Weak transcription	Psoas Muscle	Psoas
16	chr9:8451800-8464800	Weak transcription	Fetal Muscle Trunk	muscle
17	chr9:8452400-8475800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr9:8453800-8476200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr9:8456600-8468200	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr9:8456800-8464000	Weak transcription	Fetal Muscle Leg	muscle
21	chr9:8456800-8468200	Weak transcription	Ovary	ovary
22	chr9:8457400-8464400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr9:8458200-8472000	Weak transcription	Fetal Heart	heart
24	chr9:8458800-8471000	Weak transcription	Brain Anterior Caudate	brain
25	chr9:8459000-8476000	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr9:8460200-8473200	Weak transcription	Brain Angular Gyrus	brain
27	chr9:8460400-8464400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr9:8460400-8475600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr9:8460600-8464000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr9:8460600-8464000	Weak transcription	Primary hematopoietic stem cells	blood
31	chr9:8460600-8464400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr9:8460600-8468000	Weak transcription	Brain Cingulate Gyrus	brain
33	chr9:8460600-8468000	Weak transcription	Brain Hippocampus Middle	brain
34	chr9:8460600-8468400	Weak transcription	Brain Substantia Nigra	brain
35	chr9:8460600-8476000	Weak transcription	HUES64 Cell Line	embryonic stem cell
36	chr9:8460800-8465000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr9:8462200-8464200	Weak transcription	Fetal Lung	lung
38	chr9:8462400-8472800	Weak transcription	Dnd41	blood
39	chr9:8462800-8472400	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr9:8463400-8465000	Weak transcription	Placenta	Placenta

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