Variant report

Variant	rs1335342
Chromosome Location	chr9:117943616-117943617
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs13302198	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1335330	0.86[EUR][1000 genomes]
rs1335343	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1537721	0.84[EUR][1000 genomes]
rs1537722	0.86[EUR][1000 genomes]
rs1537727	0.85[EUR][1000 genomes]
rs1537728	0.84[EUR][1000 genomes]
rs1591421	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1855691	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2094941	0.85[EUR][1000 genomes]
rs2992148	0.83[EUR][1000 genomes]
rs4978618	0.83[EUR][1000 genomes]
rs4978623	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4979509	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4979510	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55991771	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56394382	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6478148	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs884789	0.83[EUR][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	nsv615250	chr9:117768021-118012841	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv916912	chr9:117770039-118014140	Flanking Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv831697	chr9:117860416-118023927	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv893769	chr9:117936903-117985886	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:117922000-117944600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr9:117930000-117964400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr9:117933600-117944400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr9:117942400-117944400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr9:117942600-117944400	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr9:117942600-117944400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr9:117942800-117944000	Active TSS	HUES6 Cell Line	embryonic stem cell
8	chr9:117942800-117944400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr9:117942800-117944600	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr9:117943000-117944400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr9:117943200-117947000	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr9:117943400-117943800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr9:117943600-117944000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr9:117943600-117944400	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr9:117943600-117945400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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