C.elegans small RNAs

miR-Intess™

miR classification

miR expression

cel-mir-1822

cel-mir-1822

block2318 (miRBase cel-mir-1822) [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-1822	0.001	no	no	0.50/0.50	22/22/1.00	nd	nd	0	0	0	0	14	5	3arm	1	nd	0.23	2	0	0	na	na

block2318 hairpin

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

cel-miR-1822	--------------------------------------------------------------GAGCTGCCCTCA----GAAAAACTCT----------------------------	22
celegans	TTCTTGAAAACT-CCAATAGTTTCTCTGGGAAAGCTATCGGCCAAA--TTTAACT---GTCCGAGCTGCCCTCA----GAAAAACTCTTGGC---------TCATCGAGAA-----
cbriggsae	-TCTAGAAAGGT-CCGAGAGCCTATCCCGGAACGCTATCGGTTGCACTTTTCAAA--AAACCGAGCTGCCCGGG----GATAGACTCTTGGC------------TTCAGA------
cjaponica	ACGTCAAAGAGC-CCGAGAGCATATCCAGGAAAGCTATCGGAAGAAT-TTCCAATTTTATCCGAGCTGCCCTAG----GATACGCCCTCTGT--------CTTGTTTGGACGT---
cbrenneri	GTCTCGAACACCACCAAGAGTTTATCCAGGAAAGCTATCGGACTGACATTTAGTA-----CCGAGCTGCCCTGG----GATAGACTCTTGGT---------AATTTTAGAGAC---
ppacificus	-----------------------GCCCCAGCAAG-----GGAGAAGCACTTCGCGTACTTCGAAGCTGCCCTTGCCAAGGTATCTTCCACGT---------CTCTTTATTG-----
cremanei	-----------G-CCGAGAGTTTATCCAGGAAAGCTATCGGCCGAGTACTTAGAA-----CCGAGCTGCCCTCG----GATAGACTCTTGGCGAAAATCAACCATTCACAAACAGG
	* * * * ** * * ******** * * * * *
	+++++++++++++++++ +++++++++++++++++++++++++++++++++ +++++++ ++++++++++++++++ ++++++++++++++ ++++++++++ +++++	ZK84.2 ZK84.2 ZK84.2
celegans	.((((((..... ((((.(((((.((((((..(((..((((.((.. ......) ).)))))))..)).)) )).))))).)))). ...)))))).	1.000 -31.00
cbriggsae	(((.((..((. (((((((.(((((((((...((..((((((............ .))))))...))))))) .)))).)))))))) ))))))	0.998 -35.02
cjaponica	(((((...(((. ..(((.((.((((((((..(((..(((((.(((. .......))).))))))))..))).) )))).)).)))... ))).....)))))	0.998 -34.50
cbrenneri	(((((.......((((((((((((((((((..(((..(((((((((...))))). )))))))..))))) .))))))))))))) .......)))))	1.000 -46.14
ppacificus	(((...((((( ((...(((..((((.......))))))).)))))))...)))........... ..........	0.925 -20.40
cremanei	( (((((((((((((((((..(((..((((.............. )))))))..))).) ))))))))))))))........................	0.867 -37.34

celegans	chromosome:II:6015495:6015586:1	Same_strand\|Intronic_coding\|ZK84.2\|ZK84.2 ## ZK84.2\|protein_coding\|ZK84.2\|ZK84.2 [Source:RefSeq_peptide;Acc:NP_495200] ## {SimpF: WRM0624aF03 1 fosmid,ZK84.2 1 Expression_profile,WRM0632dB05 1 fosmid,WRM068cG09 1 fosmid,WRM061cD12 1 fosmid,WRM066bB08 1 fosmid} ## {MIR: cel-mir-1822}
cbriggsae	chromosome:chrII:8862553:8862642:-1	Same_strand\|Intronic_coding\|NM_001047975 ## Opposite_strand\|Intronic_coding\|NM_001011629
cjaponica	chromosome:chrUn:5014614:5014712:1	Same_strand\|Intronic_coding\|NM_062799
cbrenneri	chromosome:chrUn:49225410:49225504:1	Same_strand\|Intronic_coding\|NM_062799
ppacificus	chromosome:chrUn:84123368:84123441:-1	intergenic
cremanei	chromosome:chrUn:133094413:133094507:-1	Same_strand\|Intronic_coding\|NM_062799

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