Variant report

Variant	rs66820447
Chromosome Location	chr9:108410555-108410556
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:108396717..108400413-chr9:108407791..108411231,4	K562	blood:
2	chr9:108409629..108412249-chr9:108421013..108423528,2	K562	blood:
3	chr9:108407196..108409078-chr9:108410367..108412301,2	MCF-7	breast:
4	chr9:108408623..108415220-chr9:108455348..108460683,7	K562	blood:

Variant related genes	Relation type
ENSG00000095209	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10991682	0.84[AFR][1000 genomes]
rs11999966	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12002748	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12004019	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12004886	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12342071	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1808155	0.88[AFR][1000 genomes]
rs1854124	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2149592	0.83[EUR][1000 genomes]
rs2149593	0.83[EUR][1000 genomes]
rs2417627	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs41277781	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7033452	0.84[AFR][1000 genomes]
rs7034699	0.88[AFR][1000 genomes]
rs7034702	0.83[EUR][1000 genomes]
rs7042000	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7858616	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs7867012	0.85[AFR][1000 genomes]
rs9657645	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv519023	chr9:108371549-108454745	Weak transcription Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108354400-108412400	Weak transcription	Right Ventricle	heart
2	chr9:108354600-108412200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr9:108366800-108418200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr9:108366800-108418200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr9:108397600-108411800	Weak transcription	Lung	lung
6	chr9:108401600-108418000	Weak transcription	Fetal Muscle Trunk	muscle
7	chr9:108408800-108410600	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr9:108408800-108410600	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr9:108408800-108411200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr9:108409000-108410600	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr9:108409000-108410600	Enhancers	Fetal Muscle Leg	muscle
12	chr9:108409000-108410800	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr9:108409000-108410800	Flanking Active TSS	K562	blood
14	chr9:108409200-108410600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr9:108409200-108410600	Enhancers	HUES6 Cell Line	embryonic stem cell
16	chr9:108409200-108410600	Enhancers	iPS-20b Cell Line	embryonic stem cell
17	chr9:108409400-108410600	Enhancers	H1 Cell Line	embryonic stem cell
18	chr9:108409600-108410600	Enhancers	Ovary	ovary
19	chr9:108409800-108418000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr9:108410200-108410600	Enhancers	HUES48 Cell Line	embryonic stem cell
21	chr9:108410200-108411400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr9:108410200-108414800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr9:108410400-108413800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr9:108410400-108413800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links