Variant report

Variant	rs11038408
Chromosome Location	chr11:45370488-45370489
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10838456	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11038412	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11607009	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4755318	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4755319	1.00[CEU][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];0.97[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4755320	1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[ASN][1000 genomes]
rs4755321	1.00[ASN][1000 genomes]
rs4755978	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61880359	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61882561	1.00[ASN][1000 genomes]
rs61882562	1.00[ASN][1000 genomes]
rs61882563	1.00[ASN][1000 genomes]
rs61882564	1.00[ASN][1000 genomes]
rs61882566	1.00[ASN][1000 genomes]
rs61882568	1.00[ASN][1000 genomes]
rs7943277	1.00[ASN][1000 genomes]
rs7943376	1.00[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	nsv530619	chr11:45294176-45553928	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11038408	OR4X2	cis	parietal	SCAN

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:45362200-45376400	Weak transcription	Brain Germinal Matrix	brain
2	chr11:45366800-45370600	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr11:45369200-45373800	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr11:45369200-45376600	Weak transcription	Thymus	Thymus
5	chr11:45369400-45373000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr11:45369600-45373000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr11:45369600-45373000	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr11:45369600-45373000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr11:45369600-45373000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr11:45369600-45373400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr11:45369800-45371600	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr11:45369800-45372200	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr11:45369800-45373000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr11:45369800-45373000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr11:45369800-45373000	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr11:45369800-45373200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr11:45370000-45371000	Weak transcription	Fetal Lung	lung
18	chr11:45370000-45372000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr11:45370000-45376600	Weak transcription	Fetal Stomach	stomach

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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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