Variant report

Variant	rs12554340
Chromosome Location	chr9:13598301-13598302
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10733263	0.88[EUR][1000 genomes]
rs10738338	0.90[EUR][1000 genomes]
rs10809996	0.91[EUR][1000 genomes]
rs1408320	0.92[EUR][1000 genomes]
rs1590408	0.90[EUR][1000 genomes]
rs2025435	0.90[EUR][1000 genomes]
rs2025436	0.90[EUR][1000 genomes]
rs2039466	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2147238	0.91[EUR][1000 genomes]
rs4538972	0.86[EUR][1000 genomes]
rs4741316	0.83[EUR][1000 genomes]
rs4741318	0.91[EUR][1000 genomes]
rs4741320	0.88[EUR][1000 genomes]
rs6474786	0.90[EUR][1000 genomes]
rs6474787	0.90[EUR][1000 genomes]
rs967267	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892585	chr9:13508282-13621142	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv1017792	chr9:13529680-13654107	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv1023684	chr9:13529680-13744602	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv540067	chr9:13529680-13744602	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1026786	chr9:13530105-13627116	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:13588800-13599200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr9:13596200-13598400	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr9:13596600-13607800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr9:13596600-13607800	Weak transcription	Psoas Muscle	Psoas
5	chr9:13596800-13598400	Weak transcription	NH-A	brain
6	chr9:13597600-13606200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr9:13597600-13606200	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr9:13597600-13606200	Weak transcription	Adipose Nuclei	Adipose
9	chr9:13597600-13606400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr9:13597800-13599000	Weak transcription	HUES48 Cell Line	embryonic stem cell

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

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