Variant report

Variant	rs12573738
Chromosome Location	chr10:89882379-89882380
allele	A/C
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:13)

rs_ID	r²[population]
rs11593673	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17322521	0.81[EUR][1000 genomes]
rs17322612	0.82[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.93[TSI][hapmap];0.80[EUR][1000 genomes]
rs17419930	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2225796	0.92[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs55722339	0.82[EUR][1000 genomes]
rs55727359	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56375327	0.82[EUR][1000 genomes]
rs61854447	0.80[ASN][1000 genomes]
rs7079675	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72816194	0.82[EUR][1000 genomes]
rs7899035	1.00[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap];0.81[EUR][1000 genomes]
rs7905605	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][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	nsv831940	chr10:89811247-89989199	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12573738	LRIT2	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89874000-89891400	Weak transcription	Left Ventricle	heart
2	chr10:89874600-89882400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr10:89878800-89892200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr10:89879200-89896600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr10:89880800-89882400	Weak transcription	Primary hematopoietic stem cells	blood
6	chr10:89880800-89885600	Weak transcription	Dnd41	blood
7	chr10:89881000-89885600	Weak transcription	Fetal Thymus	thymus
8	chr10:89881000-89885600	Weak transcription	Thymus	Thymus
9	chr10:89881200-89885800	Weak transcription	Primary monocytes fromperipheralblood	blood
10	chr10:89881200-89886200	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr10:89881200-89903800	Weak transcription	Primary B cells from cord blood	blood
12	chr10:89881400-89882400	Weak transcription	Primary B cells from peripheral blood	blood
13	chr10:89881600-89886600	Weak transcription	Primary neutrophils fromperipheralblood	blood

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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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