Variant report

Variant	rs10981996
Chromosome Location	chr9:98521644-98521645
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PTCH1-3	chr9:98521513-98521806	ENSG00000175611
2	lnc-PTCH1-3	chr9:98521513-98521806	ENSG00000175611.7

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10981787	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10981895	0.92[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10981907	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10982065	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28684994	0.83[EUR][1000 genomes]
rs60729070	0.93[ASN][1000 genomes]
rs60945775	0.83[EUR][1000 genomes]
rs718340	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72756383	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7853659	0.81[EUR][1000 genomes]
rs7869096	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][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	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:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98514800-98527200	Weak transcription	Rectal Smooth Muscle	rectum
2	chr9:98516600-98527200	Weak transcription	Fetal Intestine Large	intestine
3	chr9:98517600-98522400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr9:98518200-98522200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr9:98518200-98526200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr9:98518200-98528800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr9:98519600-98523200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr9:98519800-98526400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr9:98520000-98523200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr9:98520000-98523200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr9:98520000-98523200	Weak transcription	Fetal Lung	lung
12	chr9:98520000-98526200	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr9:98520000-98526200	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr9:98520000-98526200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr9:98520000-98526200	Weak transcription	HepG2	liver
16	chr9:98520000-98527200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr9:98520200-98523200	Weak transcription	Colon Smooth Muscle	Colon
18	chr9:98520200-98523400	Weak transcription	Stomach Smooth Muscle	stomach
19	chr9:98520400-98523000	Weak transcription	Fetal Stomach	stomach
20	chr9:98520800-98524800	Weak transcription	GM12878-XiMat	blood
21	chr9:98521600-98521800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell

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