Variant report

Variant	rs6478964
Chromosome Location	chr9:98529161-98529162
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1344352	0.86[CHB][hapmap]
rs4742753	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4743306	0.86[CHB][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs4743316	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4743317	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6478965	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7029459	0.86[CHB][hapmap]
rs7035466	1.00[CEU][hapmap];0.90[CHB][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7045260	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7045635	0.87[CHB][hapmap]

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	nsv893598	chr9:98508628-98645674	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98526200-98529200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:98526200-98529800	Enhancers	HUES6 Cell Line	embryonic stem cell
3	chr9:98526200-98529800	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr9:98526200-98529800	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr9:98526200-98529800	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr9:98526200-98530000	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr9:98526200-98530200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr9:98526400-98529600	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr9:98526400-98529600	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr9:98526400-98529600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr9:98526400-98530000	Enhancers	H1 Cell Line	embryonic stem cell
12	chr9:98526800-98529600	Enhancers	H9 Cell Line	embryonic stem cell
13	chr9:98527000-98532200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr9:98527600-98529600	Enhancers	Fetal Lung	lung
15	chr9:98527600-98531800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr9:98527600-98532600	Weak transcription	Ovary	ovary
17	chr9:98527600-98533000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr9:98527600-98533800	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr9:98527800-98532400	Weak transcription	Fetal Stomach	stomach
20	chr9:98528000-98530600	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr9:98528000-98531400	Weak transcription	Stomach Smooth Muscle	stomach
22	chr9:98528000-98532000	Weak transcription	HepG2	liver
23	chr9:98528000-98533200	Weak transcription	Fetal Intestine Large	intestine
24	chr9:98528000-98533600	Weak transcription	Rectal Smooth Muscle	rectum
25	chr9:98528200-98532400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr9:98528600-98529800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr9:98528800-98529600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr9:98529000-98529200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
29	chr9:98529000-98529400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell

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