C.elegans small RNAs

miR-Intess™

miR classification

miR expression

cel-mir-267

cel-mir-267

block1995 (miRBase cel-mir-267) [miRNAknown_randfoldOK]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
miRBase cel-mir-267	0.001	no	no	0.60/0.60	20/20/1.00	nd	nd	0	0	0	0	10	9	5arm	1	nd	0.20	1	0	0	na	na

block1995 hairpin

		reads	miRBase family seed
seed	-----------------------CCGUGAA--------------------------------------------------------------------------------------	0	novel
		len	cloning frequencies

cel-miR-267	----------------------CCCGTGAA-----------GTGTCTGCTGCA---------------------------------------------------------------	20
celegans	----GTTTCAAAAC--------CCCGTGAA-----------GTGTCTGCTGCAAT---------CTAAATTTTTAGATATAGATGCAGTCGACTCTTCATTGGGTTTTCAGGAACC
cremanei	----ATTTTCAAAAAAATTTAGTCCGTGAAATTGGCTAAAAATCTGTTTTTCGACTGGTTTCGGCTG--------------------------TTTTTACTGGAT-----------
cbriggsae	----------------------GCCGTGAA-----------GCGTATTTTCAGAA---------TCAGGTGTAAATACACACCGATTCTATATTTTTCATTTG-------------
cbrenneri	GGGAATTTCTGGCAAAAT---GCCCGTGAATTTGG------GCGCCTTGCCCGCGTGAGTTCGGCAAGGCGCCCAAATTCACGGGCACTTCGCCCATTTTC---------------
cjaponica	----------------------CCCGTGAAAAT--------ACGCATTTTCCA----------------TTTAAAAGTGCAAAAATGCTATA-TTTTCATGGT-------------
	******* * *
	----- ---------- -------- -------------- ---------------------------------------------------------	Y38E10A.18 Y38E10A.18 nhr-234
celegans	(((((((((( ((.((((( (.(((.(((((.(( (((.(((....))).)))))))))).))).)))))).)))))))..))))).	1.000 -37.50
cremanei	.................((((((((((..((((..(((((.(((....))).))))).)))). .)))))).))))	0.857 -16.00
cbriggsae	...((((( (.((((....(((( ((.(((((......))))))))))))))).))))))...	0.997 -17.00
cbrenneri	((((((....(((.((.( (((((((((((((( ((((((((((.((....))..))))))))))))))))))))))))).)).))).))))))	0.954 -63.50
cjaponica	.(((((((((( (.(((((((.(( ((....))))..)))))))..)) ))))))))).	1.000 -18.40

celegans	chromosome:II:12638050:12638133:-1	Opposite_strand\|Intronic_coding\|Y38E10A.18\|Y38E10A.18 ## Y38E10A.18\|protein_coding\|nhr-234\|Nuclear Hormone Receptor family member (nhr-234) [Source:RefSeq_peptide;Acc:NP_496701] ## {SimpF: WRM0637aC04 -1 fosmid,WRM0626aG08 -1 fosmid,Y38E10A.R -1 Expression_profile,WRM0623aD06 -1 fosmid,WRM065aC11 -1 fosmid,WRM0625cD02 -1 fosmid,WRM0636bC01 -1 fosmid} ## {MIR: cel-mir-267}
cremanei	chromosome:chrUn:94429321:94429395:1	intergenic
cbriggsae	chromosome:chrII:9192538:9192661:-1	Same_strand\|Intronic_coding\|NM_001047939 ## Opposite_strand\|Intronic_coding\|NM_001090075
cbrenneri	chromosome:chrUn:105679745:105679836:-1	Same_strand\|Intronic_coding\|NM_064105
cjaponica	chromosome:chrUn:124277413:124277536:-1	intergenic

©2008 InteRNA Genomics B.V.