Small RNA from different tissues of two rat strains.

miR-Intess™

miR classification

miR expression

rno-mir-9-1-as

rno-mir-9-1-as

Cloning frequencies
absolute	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-9-1-as 5arm	0.333	0.333	0	0	0	0	0	0	0	0
rno-mir-9-1-as 3arm	0.333	0.333	0	0	0	0	0	0	0	0
normalized	T1S1	T1S2	T2S1	T2S2	T3S1	T3S2	T4S1	T4S2	T5S1	T5S2
rno-mir-9-1-as 5arm	0.000	0.000	0	0	0	0	0	0	0	0
rno-mir-9-1-as 3arm	0.000	0.000	0	0	0	0	0	0	0	0

rno-mir-9-1-as relative cloning frequencies

sblock6143 (Antisense miRBase rno-mir-9-1-as) [miRBaseNonMapped_lenNOK_multiarm_DicerNOK_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
miRBaseAS rno-mir-9-1-as	0.001	no	no	0.32/0.36	18/22/0.25	0.0 1.0	0.5 1.0	2 2	0 0	2 2	0 0	26 25	2 0	5arm 3arm	3 3	nd nd	0.11 0.06	1 1	4	2	-2	2

Families
Member of family novel152 (seed CAUACAG): rno-mir-9-3, rno-mir-9-1

sblock6143 hairpin

		reads	miRBase family seed
seed	---------------------------UCGGUUA--------------------------------------------------------------------------	2	novel
seed	--------------------------------------------------------------CAUACAG---------------------------------------	1	novel
seed	----------------------------------------------------------------UACAGCU-------------------------------------	1	novel
		len	cloning frequencies
			T1S1	T1S2
	---------------------------------------------------------------ATACAGCTAGATAACCAA---------------------------	18	1	-
	--------------------------TTCGGTTATCTAGCTTTA----------------------------------------------------------------	18	-	1
	--------------------------TTCGGTTATCTAGCTTTAT---------------------------------------------------------------	19	1	-
	-------------------------------------------------------------TCATACAGCTAGATAACCAAAG-------------------------	22	-	1
rat	GCGCAGTGTATGGGGTTATTTTTACTTTCGGTTATCTAGCTTTATGAAGACTCCACACCACTCATACAGCTAGATAACCAAAGATAACAACCAACCCCGCCTCCTGGC
human	GCGCAGTGTATGGGGTTATTTTTACTTTCGGTTATCTAGCTTTATGAAGACTCCACACCACTCATACAGCTAGATAACCAAAGATAACAACCAACCCC----------
mouse	------------------------CTTTCGGTTATCTAGCTTTATGAAGACTCCACACCACTCATACAGCTAGATAACCAAAG-------------------------
	***********************************************************
	...............<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<..............	ENSRNOT00000053674 ENSRNOG00000035551 rno-mir-9-1
rat	((.(((....(((((((.((.(((((((.((((((((((((.(((((..............))))).)))))))))))))))).))).))..)))))))....)))))	0.980 -38.34
human	...........((((((.((.(((((((.((((((((((((.(((((..............))))).)))))))))))))))).))).))..))))))	0.901 -32.84
mouse	((((.((((((((((((.(((((..............))))).))))))))))))))))	1.000 -23.24

rat	chromosome:2:180293000:180293107:-1	Opposite_strand\|Exonic_non-coding\|ENSRNOT00000053674\|ENSRNOG00000035551 ## ENSRNOG00000035551\|miRNA\|rno-mir-9-1\|rno-mir-9-1 [Source:miRBase;Acc:MI0000838] ## {ASMIR: rno-mir-9-1-as}
human	chromosome:1:154656747:154656844:1	Opposite_strand\|Intronic_coding\|ENST00000368244\|ENSG00000125462\|protein_coding\|Protein CROC-4 (Contingent replication of cDNA 4) [Source:UniProtKB/Swiss-Prot;Acc:Q13536] ## Opposite_strand\|Boundary_non-coding\|ENST00000368242\|ENSG00000125462\|protein_coding\|Protein CROC-4 (Contingent replication of cDNA 4) [Source:UniProtKB/Swiss-Prot;Acc:Q13536] ## Opposite_strand\|Intronic_non-coding\|ENST00000368243\|ENSG00000125462\|protein_coding\|Protein CROC-4 (Contingent replication of cDNA 4) [Source:UniProtKB/Swiss-Prot;Acc:Q13536] ## {SimpF: rank = 1 -1 FirstEF,oe = 0.88 0 CpG} ## {ASMIR: hsa-mir-9-1-as}
mouse	chromosome:3:88019481:88019628:-1	Opposite_strand\|Boundary_non-coding\|ENSMUST00000083570\|ENSMUSG00000065504\|miRNA\|mmu-mir-9-1 [Source:miRBase;Acc:MI0000720] ## {SimpF: oe = 0.80 -1 CpG} ## {ASMIR: mmu-mir-9-1-as}

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