Variant report

Variant	rs6576947
Chromosome Location	chr1:84264102-84264103
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10159391	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11163825	0.86[EUR][1000 genomes]
rs11163846	0.82[ASN][1000 genomes]
rs1159534	0.82[ASN][1000 genomes]
rs1546921	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17129520	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2389652	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6576943	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6576946	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6699405	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.94[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7531463	0.82[ASN][1000 genomes]
rs7552393	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs761405	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs997248	0.87[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6576947	LPHN2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:84255400-84264600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr1:84258000-84265000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr1:84258200-84265200	Weak transcription	NHDF-Ad	bronchial
4	chr1:84261400-84264600	Weak transcription	Gastric	stomach
5	chr1:84262200-84265400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr1:84262400-84264600	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr1:84262400-84265000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr1:84262400-84265000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr1:84262600-84265600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr1:84262800-84268800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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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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