Variant report

Variant	rs60989687
Chromosome Location	chr2:55310104-55310105
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1012603	0.81[EUR][1000 genomes]
rs10496040	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11887323	0.88[ASN][1000 genomes]
rs17046514	0.81[EUR][1000 genomes]
rs17046643	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17046658	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2028728	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2241958	0.86[EUR][1000 genomes]
rs4672009	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4672011	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57737203	0.81[EUR][1000 genomes]
rs58156158	0.81[AFR][1000 genomes]
rs60553807	0.83[EUR][1000 genomes]
rs6724138	0.81[ASN][1000 genomes]
rs73936818	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73936829	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs60989687	RTN4	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:55299200-55318000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr2:55308800-55312000	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr2:55309200-55312000	Enhancers	Primary neutrophils fromperipheralblood	blood
4	chr2:55309200-55315200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr2:55309600-55310600	Enhancers	Rectal Mucosa Donor 31	rectum
6	chr2:55309800-55310400	Enhancers	Monocytes-CD14+_RO01746	blood
7	chr2:55310000-55310600	Enhancers	HUVEC	blood vessel
8	chr2:55310000-55311200	Enhancers	Hela-S3	cervix

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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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