C.elegans small RNAs

miR-Intess™

miR classification

miR expression

cel-mir-356

cel-mir-356

block3719 (miRBase cel-mir-356) [miRNAknown]

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-356	0.018	no	no	0.43/0.43	21/21/1.00	nd	nd	0	0	0	0	25	6	5arm	1	nd	0.29	2	0	0	na	na

block3719 hairpin

		reads	miRBase family seed
seed	----------------------------------------------UGAGCAA-------------------------------------------------------------------------------	0	miR-233/356/87
		len	cloning frequencies

cel-miR-356	---------------------------------------------TTGAGCAAC-GCGAACAAATC-A----------------------------------------------------------------	21
celegans	--------------------TAAAGTTTCCTTGAGAACAATGTGGTTGAGCAAC-GCGAACAAATC-ATCAATGTAAATTTCAGCGGATTCGTTACGACGTGTCTCACCACATCGTTAGTAGGATTTCAGAA
cbriggsae	---------------------------------------------ATGAGCAAC-GCGAACAAATCCTCTTAT---AA------GAGATTTGCCACGCCGCCGCTCAC------------------------
cbrenneri	---------------------------------------------TTGAGCAATAGTAGAAATGACCAACAA----AATTTACCCAAATCT----TGTTGTTTTCCAC--------------AATTTCTCAG
cjaponica	---------------------------------------------ATGAGCAAT-GCGAACAAATCAATCGAT---AATTCAGATGGATTTGTTGCCACGTGGCTCAC------------------------
ppacificus	---------------------------------------------TTGAGCAACAGCGTAAGAGAC-ATCGATGGAAA----CGTAGATTACCTTTAATTGTGTTCAT------------------------
cremanei	TAGAGGAAAAGAAATAAAATTAAACCGCTTTTGCCATCGATGTGGTTGAGCAAC-GCGAACAAATC-ATCGA----AAATGACTGAGATTTGCGCCAACGTGGCTCACCACATCG-------AATTGGAGCG
	******* * * * * **
celegans	.......((((....(((.(((((((.(((..(( ((((((.(((( .....((.......))...)))).))).)).)))..)))))))))).)))...))))........	1.000 -29.20
cbriggsae	.(((((... (((..(((((.((((... .) ))))))))...)))....))))).	1.000 -16.00
cbrenneri	.((((.(((.((.((((....(((((( .((((....)))).) ))))).)))).)) .))).)))).	1.000 -13.00
cjaponica	.(((((... ((.((((((((.(((((. ...)).))).))))))))))......))))).	1.000 -18.60
ppacificus	.(((((.((((...(((.... (((.(((.... ))).)))...)))...))))))))).	0.995 -13.00
cremanei	.........................((((((.....(((((((((.(((((.(( (((..(((((( .(((. .......))))))))))))....)).))))))))))))) )...))))))	0.960 -37.30

celegans	chromosome:III:7860073:7860182:1	intergenic ## {SimpF: WRM0615aC07 1 fosmid,ZK652.2 1 Expression_profile,WRM061cC03 1 fosmid,WRM065dF11 1 fosmid,WRM068bA12 1 fosmid,WRM0635aH10 1 fosmid} ## {MIR: cel-mir-356}
cbriggsae	chromosome:chrIII:10353527:10353676:-1	Same_strand\|Intronic_coding\|NM_000209 ## Opposite_strand\|Intronic_coding\|NM_170975 ## {MIR: cbr-mir-356}
cbrenneri	chromosome:chrUn:167667831:167667980:1	intergenic
cjaponica	chromosome:chrUn:31081396:31081545:1	intergenic
ppacificus	chromosome:chrUn:165565819:165565968:1	intergenic
cremanei	chromosome:chrUn:133239914:133240032:-1	Opposite_strand\|Intronic_coding\|NM_001002694

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