Non-Coding RNA Search

Ss1.1-Ova1-OVRM10087H12.5

Sequence:


               
               TGCGCAGAGTTGAATGGTACCAGGATTGGGAGGACCGAATTAGGAGAGGTGTACATCGTT
GTGACTACGTTCAAGGCAGGAAGACGTGGGCGGGGAAGGGCTTCTGTGCAGTTCTTTAGG
GAAGTGCAAGCTTGCCCAGAAACCCCAGCATACCTCTGCTTACATGCCATTGGCCCGGCT
AGGTCACGTGACCACCTGGCTGCCAGGCAAGTCAGGAATTTGGGGACCCGATTGTCCTGA
TTGTCTTAGCCTTACACCACATTGATCCATCACCCAGGAAGGCTGCCCCACCCAGAGTCC
AGCCTGGGTTGGTGACGAAGGCACAGTGTAGCAGTTAAGAATGTATTCGCAAGTGTGAAG
ACTAAGGCACAGAGTGGTTAAGTAACCTGTGCAAAGTCAGCAGAGCCAGGATTCAGACCC
ACACAGTCTGACTCCGAAGCTCTCACGTGGCTGCTCTTCTGCTCCAAGGCCCTGTGGACA
AAATCCAGTTACAACCGCCTCTTGCCATAACTGGACACAGAGGGAGGCACTCCTTCAATC
TCTTTATCCAAATGAGGCTCCCAGCAGGGTTTCTGAGTCAGGGGCTTCCAGCAAGGAATT
TGTAGGTACATGGCCGCTTTTCCCCCAGCAGATACAGAAAGAGCCTAGAGCCCAAACTCC
CCCTGCTTCAGAACAAGGGCCACGGGCTGTCCATACCCCTGCTGTAGTGAGACGTCAGCA
CCGTGTGGGCTCTTTGATCTTTTATATCCCATGCTTTATGGTCAACCCCATTTAACCAAA
AAGCTCTAGCTATAATAGGGCATTGGAGTGGTATGATACGTGAGTTACAGCTCAATAAAG
GCATTAAGGCTTTGGCCTAGATGATCCTAGACTTCTCCCTGCTCTAACCGGATGGAAACA
TTGCCCCTCACCCATCAGCATCCTCTTGCCTCCGCATTCCCGTCCCCCAGCCCAGAAATG
CAAGTGTGTGAGTTCCATAAGCCAGAGTTGGAGGGCCAGCAGTCAGAGTGAACCAGGCTC
TCCCCAACTCCTCGCATCCCTGCCTCCCCCTACAGTGGTGTTTCCCCAGGATCTGCTGGA
GAAGGGCCTGGAGGCAGACAACTTCGCCATGCTGGGACTCGGAGACATCGTCATTCCAGG
TGACTCAGCTGGGGTGGGGGCCACAGTGCAAGGAGTGGAGGTGGACTCCCTGGAGGAGGA
GGAGTCTGTGAAATGGGCTCACCCCCCTGGGAGAGGGAAGGAGAAAAAGAGGCCGGGAGA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TGCGCAGAGTTGAATGGTACCAGGATTGGGAGGACCGAATTAGGAGAGGTGTACATCGTT
GTGACTACGTTCAAGGCAGGAAGACGTGGGCGGGGAAGGGCTTCTGTGCAGTTCTTTAGG
GAAGTGCAAGCTTGCCCAGAAACCCCAGCATACCTCTGCTTACATGCCATTGGCCCGGCT
AGGTCACGTGACCACCTGGCTGCCAGGCAAGTCAGGAATTTGGGGACCCGATTGTCCTGA
TTGTCTTAGCCTTACACCACATTGATCCATCACCCAGGAAGGCTGCCCCACCCAGAGTCC
AGCCTGGGTTGGTGACGAAGGCACAGTGTAGCAGTTAAGAATGTATTCGCAAGTGTGAAG
ACTAAGGCACAGAGTGGTTAAGTAACCTGTGCAAAGTCAGCAGAGCCAGGATTCAGACCC
ACACAGTCTGACTCCGAAGCTCTCACGTGGCTGCTCTTCTGCTCCAAGGCCCTGTGGACA
AAATCCAGTTACAACCGCCTCTTGCCATAACTGGACACAGAGGGAGGCACTCCTTCAATC
TCTTTATCCAAATGAGGCTCCCAGCAGGGTTTCTGAGTCAGGGGCTTCCAGCAAGGAATT
TGTAGGTACATGGCCGCTTTTCCCCCAGCAGATACAGAAAGAGCCTAGAGCCCAAACTCC
CCCTGCTTCAGAACAAGGGCCACGGGCTGTCCATACCCCTGCTGTAGTGAGACGTCAGCA
CCGTGTGGGCTCTTTGATCTTTTATATCCCATGCTTTATGGTCAACCCCATTTAACCAAA
AAGCTCTAGCTATAATAGGGCATTGGAGTGGTATGATACGTGAGTTACAGCTCAATAAAG
GCATTAAGGCTTTGGCCTAGATGATCCTAGACTTCTCCCTGCTCTAACCGGATGGAAACA
TTGCCCCTCACCCATCAGCATCCTCTTGCCTCCGCATTCCCGTCCCCCAGCCCAGAAATG
CAAGTGTGTGAGTTCCATAAGCCAGAGTTGGAGGGCCAGCAGTCAGAGTGAACCAGGCTC
TCCCCAACTCCTCGCATCCCTGCCTCCCCCTACAGTGGTGTTTCCCCAGGATCTGCTGGA
GAAGGGCCTGGAGGCAGACAACTTCGCCATGCTGGGACTCGGAGACATCGTCATTCCAGG
TGACTCAGCTGGGGTGGGGGCCACAGTGCAAGGAGTGGAGGTGGACTCCCTGGAGGAGGA
GGAGTCTGTGAAATGGGCTCACCCCCCTGGGAGAGGGAAGGAGAAAAAGAGGCCGGGAGA

Predicted RNA structure(s): 2 entry(ies)

More info

Predicted RNA structure(s): 2 entry(ies)

Help | Less info


               
               423-574, - strand, RNAz p=0.999352
               

               
               988-1213, + strand, RNAz p=0.975775

Predicted RNA structure(s): 2 entry(ies)

Help | Less info

PigEST conread start position and end position of the predicted RNA structure by RNAz,
PigEST conread reading direction of predicted structure,
ncRNA classificator p of RNAz


               
               423-574, - strand, RNAz p=0.999352
               

               
               988-1213, + strand, RNAz p=0.975775

Predicted microRNA(s): 1 entry(ies)

More info

Predicted microRNA(s): 1 entry(ies)

Help | Less info


               
               1026-1122, - strand, RNAmicro p=0.996087

Predicted microRNA(s): 1 entry(ies)

Help | Less info

PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               1026-1122, - strand, RNAmicro p=0.996087

Similar Transcript(s): 7 entry(ies)

More info

Similar Transcript(s): 7 entry(ies)

Help | Less info


               
               423-574, CJ021354 full-length enriched swine cDNA library, adult spleen Sus 
(dbj|CJ021354.1|), blast E-value=0, identity=100% 
               

               
               988-1155, CJ021354 full-length enriched swine cDNA library, adult spleen Sus 
(dbj|CJ021354.1|), blast E-value=0, identity=100% 
               

               
               988-1213, DB813336 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB813336.1|), blast E-value=0, identity=98.67% 
               

               
               1056-1140, sh3P0001K04_F.ab1 adult sheep fracture callus 10d Ovis aries cDNA, 
(gb|DY505910.1|), blast E-value=2e-29, identity=95.29% 
               

               
               1056-1140, sh3P0022E17_F.ab1 adult sheep fracture callus 10d Ovis aries cDNA, 
(gb|DY512564.1|), blast E-value=2e-29, identity=95.29% 
               

               
               1056-1140, sh3P0049N19_F.ab1 adult sheep fracture callus 10d Ovis aries cDNA, 
(gb|DY521360.1|), blast E-value=2e-29, identity=95.29% 
               

               
               1056-1140, LB03089.CR_M07 GC_BGC-30 Bos taurus cDNA clone IMAGE 
(gb|EE388403.1|), blast E-value=2e-29, identity=95.29%

Similar Transcript(s): 7 entry(ies)

Help | Less info

PigEST conread start position and end position of sequence similarity to another annotated EST (NCBI dbEST),
transcript identifier and annotation,
blast E-value,
PigEST conread identity to the similar transcript


               
               423-574, CJ021354 full-length enriched swine cDNA library, adult spleen Sus 
(dbj|CJ021354.1|), blast E-value=0, identity=100% 
               

               
               988-1155, CJ021354 full-length enriched swine cDNA library, adult spleen Sus 
(dbj|CJ021354.1|), blast E-value=0, identity=100% 
               

               
               988-1213, DB813336 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB813336.1|), blast E-value=0, identity=98.67% 
               

               
               1056-1140, sh3P0001K04_F.ab1 adult sheep fracture callus 10d Ovis aries cDNA, 
(gb|DY505910.1|), blast E-value=2e-29, identity=95.29% 
               

               
               1056-1140, sh3P0022E17_F.ab1 adult sheep fracture callus 10d Ovis aries cDNA, 
(gb|DY512564.1|), blast E-value=2e-29, identity=95.29% 
               

               
               1056-1140, sh3P0049N19_F.ab1 adult sheep fracture callus 10d Ovis aries cDNA, 
(gb|DY521360.1|), blast E-value=2e-29, identity=95.29% 
               

               
               1056-1140, LB03089.CR_M07 GC_BGC-30 Bos taurus cDNA clone IMAGE 
(gb|EE388403.1|), blast E-value=2e-29, identity=95.29%

Aligned organism(s): 6 entry(ies)

More info

Aligned organism(s): 6 entry(ies)

Help | Less info


               
               5-348, gnl|bosTau2|chr13 (43286564-43286910)
               

               
               5-348, gnl|Hg17|chr20 (29604201-29604941)
               


               
               350-615, gnl|bosTau2|chr13 (43286970-43287245)
               

               
               350-615, gnl|Hg17|chr20 (29605000-29605264)
               


               
               626-1246, gnl|bosTau2|chr13 (43287291-43287930)
               

               
               626-1246, gnl|Hg17|chr20 (29605279-29606398)

Aligned organism(s): 6 entry(ies)

Help | Less info

PigEST conread start position and end position of the aligned locus,
aligned organism with chromosome (chromosome position)
closely related Artiodactyla cow is linked to the PigEST - Genome Map


               
               5-348, gnl|bosTau2|chr13 (43286564-43286910)
               

               
               5-348, gnl|Hg17|chr20 (29604201-29604941)
               


               
               350-615, gnl|bosTau2|chr13 (43286970-43287245)
               

               
               350-615, gnl|Hg17|chr20 (29605000-29605264)
               


               
               626-1246, gnl|bosTau2|chr13 (43287291-43287930)
               

               
               626-1246, gnl|Hg17|chr20 (29605279-29606398)

Expressed library(ies): 1 entry(ies)

More info

Expressed library(ies): 1 entry(ies)

Help | Less info


               
               cly (0.120642)

Expressed library(ies): 1 entry(ies)

Help | Less info

Short name of the library (expression score),
see https://rth.dk/resources/pigest/download/pigest_kvl_1.0.1/cDNA_names.html for library description


               
               cly (0.120642)

	423-574, - strand, RNAz p=0.999352
	988-1213, + strand, RNAz p=0.975775

	423-574, CJ021354 full-length enriched swine cDNA library, adult spleen Sus (dbj\|CJ021354.1\|), blast E-value=0, identity=100%
	988-1155, CJ021354 full-length enriched swine cDNA library, adult spleen Sus (dbj\|CJ021354.1\|), blast E-value=0, identity=100%
	988-1213, DB813336 full-length enriched swine cDNA library, adult ovary Sus (dbj\|DB813336.1\|), blast E-value=0, identity=98.67%
	1056-1140, sh3P0001K04_F.ab1 adult sheep fracture callus 10d Ovis aries cDNA, (gb\|DY505910.1\|), blast E-value=2e-29, identity=95.29%
	1056-1140, sh3P0022E17_F.ab1 adult sheep fracture callus 10d Ovis aries cDNA, (gb\|DY512564.1\|), blast E-value=2e-29, identity=95.29%
	1056-1140, sh3P0049N19_F.ab1 adult sheep fracture callus 10d Ovis aries cDNA, (gb\|DY521360.1\|), blast E-value=2e-29, identity=95.29%
	1056-1140, LB03089.CR_M07 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE388403.1\|), blast E-value=2e-29, identity=95.29%

	5-348, gnl\|bosTau2\|chr13 (43286564-43286910)
	5-348, gnl\|Hg17\|chr20 (29604201-29604941)

	350-615, gnl\|bosTau2\|chr13 (43286970-43287245)
	350-615, gnl\|Hg17\|chr20 (29605000-29605264)

	626-1246, gnl\|bosTau2\|chr13 (43287291-43287930)
	626-1246, gnl\|Hg17\|chr20 (29605279-29606398)