miR-Intess: cel-mir-1828

cel-mir-1828

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-1828	0.002	no	DNA	0.35/0.35	23/23/1.00	nd	nd	0	0	0	0	0	5	3arm	1	nd	0.27	3	0	0	na	na

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

cel-miR-1828	--------------------------------------------------------------------ACTGGAAGCATTTAAGTGATAGT--------------------	23
celegans	-----------------------GATCACTTTTATCGGTTCCGGTCCCTCTGCAAAAAAG-----TGGACTGGAAGCATTTAAGTGATAGT--------------------
cremanei	CGGGGACGACGTGCGGGTCTCGTGGCGGCTTTCTACCGTAC---TTCACTCATAAAAA--------GTTCTGGAAGTACAGTAGTCGCAACGAGACCCGCCCACGTCTCCG
cbriggsae	-----------------------GATCAAT---CATCGTGCCGATTGACCTGAAGCCAAAACTTTTGGACTGGAAGA--TGAAGCTTGGTC--------------------
cjaponica	--GAACCCGAGAGCTTTCTGGCCGGCTACTTTTCATGCTTCCTGTCCACCGTTTATCA--------GAACTGGAAGCATTGAAGTGGCGGCGCCTGAATGTTTATTGGTTT
	* * * * * * * *****
	+++++ +++++++++++++++++++++++++++++++++++++ ++++++++++++++++++++++++++ +++++	T22A3.5 T22A3.5 pash-1
celegans	.(((((((..((.(.(((((((((..((.......)) .))))))))).)))..)))))))...	1.000 -25.10
cremanei	((((((((....(((((((((((.((((((....((.(((( ((((((.......) ))....))))))).)))))))).)))))))))))...))))))))	1.000 -53.30
cbriggsae	((((((( ((((...(((.....((.((((......)))).))..)))..)) )))...))))))	0.964 -14.50
cjaponica	(((((...((((.(((.(((..((((((((..((((((((..((............ ))...)))))))).))))))))...))).))).))))...)))))	1.000 -35.70

celegans	chromosome:I:10600452:10600514:1	Same_strand\|Intronic_coding\|T22A3.5\|T22A3.5 ## T22A3.5\|protein_coding\|pash-1\|pash-1 encodes an RNA-binding protein that is orthologous to Drosophila Pasha and mammalian DGCR8. pash-1 activity is required for processing of primary miRNA transripts (pri-miRNAs), such as that of let-7, to generate pre-miRNAs that will then be processed by DCR-1 to generate mature miRNAs. accordingly, pash-1 mutants show defects in let-7-mediated developmental processes, namely the transition from late larval to adult cell fates. [Source: WormBase] ## {SimpF: WRM0621aA07 1 fosmid,WRM0630aE12 1 fosmid} ## {MIR: cel-mir-1828}
cremanei	chromosome:chrUn:23148206:23148305:1	intergenic
cbriggsae	chromosome:chrV_random:248632:248734:-1	Same_strand\|Intronic_coding\|NM_072444 ## Opposite_strand\|Intronic_coding\|NM_062190 ## {Repeats: Mariner21_CB -32 418 1 class=DNA}
cjaponica	chromosome:chrUn:74907003:74907103:-1	Opposite_strand\|Intronic_coding\|NM_001017254