Variant report

Variant	rs17046658
Chromosome Location	chr2:55309966-55309967
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:55275957..55278477-chr2:55309123..55311795,3	MCF-7	breast:
2	chr2:55309144..55311661-chr2:55314427..55318457,3	K562	blood:
3	chr2:55304969..55307023-chr2:55308110..55310726,2	MCF-7	breast:
4	chr2:55275400..55277575-chr2:55309168..55310869,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115310	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1012603	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs10496034	0.80[EUR][1000 genomes]
rs10496040	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11884082	0.88[AFR][1000 genomes]
rs11887323	1.00[CHB][hapmap];0.82[JPT][hapmap];0.91[YRI][hapmap];0.88[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17046514	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs17046583	0.85[CEU][hapmap]
rs17046643	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2028728	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2241958	0.90[EUR][1000 genomes]
rs4233955	0.80[EUR][1000 genomes]
rs4671993	1.00[CEU][hapmap]
rs4671995	0.80[EUR][1000 genomes]
rs4671997	0.80[EUR][1000 genomes]
rs4672006	0.80[EUR][1000 genomes]
rs4672009	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4672011	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57737203	0.84[EUR][1000 genomes]
rs58156158	0.91[AFR][1000 genomes]
rs60553807	0.86[EUR][1000 genomes]
rs60989687	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6724138	0.90[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs73936818	0.81[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73936821	0.83[AFR][1000 genomes]
rs73936824	0.85[AFR][1000 genomes]
rs73936829	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs957920	0.88[AFR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17046658	RTN4	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:6 , 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

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