Non-Coding RNA Search

Ss1.1-Ova2-C0003273_F04.5

Sequence:


               
               GAGCAGCCACCCCTAAAGCAGACACCGTTCTGAACTCACGAAAGACTCAGACGGGAATGT
CGGCAGCCATTCCAGCTCCACTCTTAACTGTCCTGAATTTGTTAGAAACTGATCTGAAAG
AAAATTTGTCTTAAAATTCCATATACACGCACACACGCACGCACGCACACACACACAACG
AATTGTCTTTAATTATAGTCAGAATTTTTTCTAACAATAACTGATTTGGACCATTTTAAA
CATTCCCTGTTCTAAAGTTCATGCGGCTTCCTTTAAGAAGTAGGACAAAAGGGTAAATTT
GTGACAGGTTTGCTCTCTGCGCTTCCTAACCTACAGAATTGTGACTGAATCAGAGAGCTC
TAGCATTTACCAGTGAGGTTCATAAACTAAACTCTCAGGAATTCATTGCATCTGTTCTAG
AAGTGCTTCTGGGTCTGAGTCTGGCCTCTTCAGAGTGGTAATACTGCCCATTTCCTCTGG
AAAATAGGCAGGGCTAATGAGAAATAATCAAAATGA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAGCAGCCACCCCTAAAGCAGACACCGTTCTGAACTCACGAAAGACTCAGACGGGAATGT
CGGCAGCCATTCCAGCTCCACTCTTAACTGTCCTGAATTTGTTAGAAACTGATCTGAAAG
AAAATTTGTCTTAAAATTCCATATACACGCACACACGCACGCACGCACACACACACAACG
AATTGTCTTTAATTATAGTCAGAATTTTTTCTAACAATAACTGATTTGGACCATTTTAAA
CATTCCCTGTTCTAAAGTTCATGCGGCTTCCTTTAAGAAGTAGGACAAAAGGGTAAATTT
GTGACAGGTTTGCTCTCTGCGCTTCCTAACCTACAGAATTGTGACTGAATCAGAGAGCTC
TAGCATTTACCAGTGAGGTTCATAAACTAAACTCTCAGGAATTCATTGCATCTGTTCTAG
AAGTGCTTCTGGGTCTGAGTCTGGCCTCTTCAGAGTGGTAATACTGCCCATTTCCTCTGG
AAAATAGGCAGGGCTAATGAGAAATAATCAAAATGA

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

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

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               253-392, - strand, RNAz p=0.998856
               

               
               399-516, - strand, RNAz p=0.533104

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

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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


               
               253-392, - strand, RNAz p=0.998856
               

               
               399-516, - strand, RNAz p=0.533104

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               332-425, + strand, RNAmicro p=0.994607

Predicted microRNA(s): 1 entry(ies)

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


               
               332-425, + strand, RNAmicro p=0.994607

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               253-392, UI-R-BJ1-awj-g-01-0-UI.s1 UI-R-BJ1 Rattus norvegicus cDNA clone 
(gb|BE114154.1|), blast E-value=0, identity=100% 
               

               
               253-392, UI-R-FJ0-cqc-n-20-0-UI.s1 UI-R-FJ0 Rattus norvegicus cDNA clone 
(gb|CA506973.1|), blast E-value=0, identity=100% 
               

               
               253-392, UI-R-FJ0-cqc-n-20-0-UI.r1 UI-R-FJ0 Rattus norvegicus cDNA clone 
(gb|CA513517.1|), blast E-value=0, identity=100% 
               

               
               253-392, UI-R-FS0-crx-j-20-0-UI.s1 NCI_CGAP_FS0 Rattus norvegicus cDNA clone 
(gb|CB327156.1|), blast E-value=0, identity=100% 
               

               
               253-392, AMGNNUC (gb|CB801672.1|), blast E-value=0, identity=100%
               

               
               253-392, RVL20538 Wackym-Soares normalized rat vestibular cDNA library 
(gb|DV727956.1|), blast E-value=0, identity=100%

Similar Transcript(s): 6 entry(ies)

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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


               
               253-392, UI-R-BJ1-awj-g-01-0-UI.s1 UI-R-BJ1 Rattus norvegicus cDNA clone 
(gb|BE114154.1|), blast E-value=0, identity=100% 
               

               
               253-392, UI-R-FJ0-cqc-n-20-0-UI.s1 UI-R-FJ0 Rattus norvegicus cDNA clone 
(gb|CA506973.1|), blast E-value=0, identity=100% 
               

               
               253-392, UI-R-FJ0-cqc-n-20-0-UI.r1 UI-R-FJ0 Rattus norvegicus cDNA clone 
(gb|CA513517.1|), blast E-value=0, identity=100% 
               

               
               253-392, UI-R-FS0-crx-j-20-0-UI.s1 NCI_CGAP_FS0 Rattus norvegicus cDNA clone 
(gb|CB327156.1|), blast E-value=0, identity=100% 
               

               
               253-392, AMGNNUC (gb|CB801672.1|), blast E-value=0, identity=100%
               

               
               253-392, RVL20538 Wackym-Soares normalized rat vestibular cDNA library 
(gb|DV727956.1|), blast E-value=0, identity=100%

Aligned organism(s): 15 entry(ies)

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Aligned organism(s): 15 entry(ies)

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               178-516, gnl|bosTau2|chr19 (28481512-28481181)
               

               
               178-516, gnl|canFam2|chr9 (30336093-30336494)
               

               
               178-516, gnl|dasNov1|scaffold_12680 (44288-44687)
               

               
               178-516, gnl|echTel1|scaffold_310655 (71162-71553)
               

               
               178-516, gnl|galGal2|chr18 (4868467-4868868)
               

               
               178-516, gnl|hg17|chr17 (46611381-46611790)
               

               
               178-516, gnl|Hg17|chr17 (46611883-46611498)
               

               
               178-516, gnl|loxAfr1|scaffold_22547 (16012-16420)
               

               
               178-516, gnl|mm7|chr11 (94054447-94054022)
               

               
               178-516, gnl|Mm7|chr11 (94053957-94054304)
               

               
               178-516, gnl|monDom2|scaffold_124 (2116210-2115809)
               

               
               178-516, gnl|oryCun1|scaffold_206014 (37996-37596)
               

               
               178-516, gnl|panTro1|chr19_random (32253837-32254244)
               

               
               178-516, gnl|rheMac2|chr16 (35414789-35415201)
               

               
               178-516, gnl|rn3|chr10 (82592870-82592453)

Aligned organism(s): 15 entry(ies)

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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


               
               178-516, gnl|bosTau2|chr19 (28481512-28481181)
               

               
               178-516, gnl|canFam2|chr9 (30336093-30336494)
               

               
               178-516, gnl|dasNov1|scaffold_12680 (44288-44687)
               

               
               178-516, gnl|echTel1|scaffold_310655 (71162-71553)
               

               
               178-516, gnl|galGal2|chr18 (4868467-4868868)
               

               
               178-516, gnl|hg17|chr17 (46611381-46611790)
               

               
               178-516, gnl|Hg17|chr17 (46611883-46611498)
               

               
               178-516, gnl|loxAfr1|scaffold_22547 (16012-16420)
               

               
               178-516, gnl|mm7|chr11 (94054447-94054022)
               

               
               178-516, gnl|Mm7|chr11 (94053957-94054304)
               

               
               178-516, gnl|monDom2|scaffold_124 (2116210-2115809)
               

               
               178-516, gnl|oryCun1|scaffold_206014 (37996-37596)
               

               
               178-516, gnl|panTro1|chr19_random (32253837-32254244)
               

               
               178-516, gnl|rheMac2|chr16 (35414789-35415201)
               

               
               178-516, gnl|rn3|chr10 (82592870-82592453)

	253-392, - strand, RNAz p=0.998856
	399-516, - strand, RNAz p=0.533104

	253-392, UI-R-BJ1-awj-g-01-0-UI.s1 UI-R-BJ1 Rattus norvegicus cDNA clone (gb\|BE114154.1\|), blast E-value=0, identity=100%
	253-392, UI-R-FJ0-cqc-n-20-0-UI.s1 UI-R-FJ0 Rattus norvegicus cDNA clone (gb\|CA506973.1\|), blast E-value=0, identity=100%
	253-392, UI-R-FJ0-cqc-n-20-0-UI.r1 UI-R-FJ0 Rattus norvegicus cDNA clone (gb\|CA513517.1\|), blast E-value=0, identity=100%
	253-392, UI-R-FS0-crx-j-20-0-UI.s1 NCI_CGAP_FS0 Rattus norvegicus cDNA clone (gb\|CB327156.1\|), blast E-value=0, identity=100%
	253-392, AMGNNUC (gb\|CB801672.1\|), blast E-value=0, identity=100%
	253-392, RVL20538 Wackym-Soares normalized rat vestibular cDNA library (gb\|DV727956.1\|), blast E-value=0, identity=100%

	178-516, gnl\|bosTau2\|chr19 (28481512-28481181)
	178-516, gnl\|canFam2\|chr9 (30336093-30336494)
	178-516, gnl\|dasNov1\|scaffold_12680 (44288-44687)
	178-516, gnl\|echTel1\|scaffold_310655 (71162-71553)
	178-516, gnl\|galGal2\|chr18 (4868467-4868868)
	178-516, gnl\|hg17\|chr17 (46611381-46611790)
	178-516, gnl\|Hg17\|chr17 (46611883-46611498)
	178-516, gnl\|loxAfr1\|scaffold_22547 (16012-16420)
	178-516, gnl\|mm7\|chr11 (94054447-94054022)
	178-516, gnl\|Mm7\|chr11 (94053957-94054304)
	178-516, gnl\|monDom2\|scaffold_124 (2116210-2115809)
	178-516, gnl\|oryCun1\|scaffold_206014 (37996-37596)
	178-516, gnl\|panTro1\|chr19_random (32253837-32254244)
	178-516, gnl\|rheMac2\|chr16 (35414789-35415201)
	178-516, gnl\|rn3\|chr10 (82592870-82592453)