Variant report

Variant	rs2890778
Chromosome Location	chr9:8420168-8420169
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10739162	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10758972	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10758973	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10815866	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10815870	0.83[EUR][1000 genomes]
rs13292038	0.81[AMR][1000 genomes]
rs1359114	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1500332	0.84[EUR][1000 genomes]
rs1500333	0.84[EUR][1000 genomes]
rs1535674	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1535675	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2031214	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2031216	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3847294	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3896024	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6477303	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7039560	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7043664	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7856760	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7861870	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[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	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	nsv613287	chr9:8408453-8422302	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8389600-8451000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr9:8394000-8424400	Weak transcription	Fetal Lung	lung
3	chr9:8402400-8421000	Weak transcription	Brain Hippocampus Middle	brain
4	chr9:8402600-8448800	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr9:8402800-8438000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr9:8405800-8438000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr9:8408200-8429200	Weak transcription	Brain Cingulate Gyrus	brain
8	chr9:8410400-8420200	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr9:8410600-8420400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr9:8410600-8436800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr9:8410800-8420400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr9:8415400-8435800	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr9:8418200-8476000	Weak transcription	Fetal Brain Male	brain
14	chr9:8419200-8491000	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr9:8419400-8420200	Enhancers	Muscle Satellite Cultured Cells	--
16	chr9:8419600-8421200	Enhancers	HUES64 Cell Line	embryonic stem cell
17	chr9:8419800-8421200	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr9:8419800-8421200	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr9:8419800-8447600	Weak transcription	Fetal Brain Female	brain
20	chr9:8420000-8420200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr9:8420000-8420200	Enhancers	Brain Substantia Nigra	brain
22	chr9:8420000-8422000	Enhancers	Brain Germinal Matrix	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links