Variant report

Variant	rs17171489
Chromosome Location	chr7:38977337-38977338
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11976952	0.81[TSI][hapmap]
rs1229047	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17171483	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17171484	0.84[EUR][1000 genomes]
rs17171485	1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17171532	0.81[TSI][hapmap]
rs1830258	0.88[ASN][1000 genomes]
rs2177798	0.81[TSI][hapmap]
rs2392612	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35054698	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4276581	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4307243	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4376417	1.00[ASW][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4507665	1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6979541	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7802955	0.81[TSI][hapmap]
rs859524	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[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	nsv830967	chr7:38913837-39069253	Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:38969800-38977400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr7:38969800-38977800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr7:38972600-38977400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr7:38972600-38978000	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr7:38972600-38978000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr7:38972600-38978000	Weak transcription	Fetal Brain Female	brain
7	chr7:38972600-38987200	Weak transcription	Aorta	Aorta
8	chr7:38974400-38978200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr7:38976800-38977400	Enhancers	Fetal Brain Male	brain
10	chr7:38977000-38978600	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr7:38977200-38977600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr7:38977200-38977600	Enhancers	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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