Variant report

Variant	rs11887323
Chromosome Location	chr2:55286146-55286147
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10496040	1.00[CHB][hapmap];0.90[YRI][hapmap];0.88[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs11884082	0.86[AFR][1000 genomes]
rs17046643	1.00[CHB][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs17046658	1.00[CHB][hapmap];0.82[JPT][hapmap];0.91[YRI][hapmap];0.88[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs2028728	1.00[CHB][hapmap];0.81[YRI][hapmap];0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4672009	0.82[ASN][1000 genomes]
rs4672011	1.00[CHB][hapmap];0.82[JPT][hapmap];0.90[YRI][hapmap];0.88[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs58156158	0.83[AFR][1000 genomes]
rs60989687	0.88[ASN][1000 genomes]
rs6724138	0.90[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs73936818	0.90[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs73936821	0.91[AFR][1000 genomes]
rs73936824	0.90[AFR][1000 genomes]
rs73936829	0.86[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	nsv874155	chr2:55205262-55307646	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11887323	RTN4	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:55278200-55288800	Weak transcription	Lung	lung
2	chr2:55278800-55288600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr2:55278800-55290800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr2:55279000-55287000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr2:55279000-55290600	Weak transcription	Brain Cingulate Gyrus	brain
6	chr2:55279400-55287600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr2:55279800-55287400	Weak transcription	HSMM	muscle
8	chr2:55280000-55289000	Weak transcription	HepG2	liver
9	chr2:55280200-55287200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr2:55280200-55288200	Weak transcription	Primary monocytes fromperipheralblood	blood
11	chr2:55281800-55287600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr2:55283600-55287600	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr2:55283800-55286600	Weak transcription	K562	blood
14	chr2:55284800-55287200	Weak transcription	Fetal Heart	heart

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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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