Non-Coding RNA Search

Ss1.1-rpfco0137_i3.5

Sequence:


               
               TAGTGACCTATTCTTTATTTTGTTGAGGGATATTTTGCCAATGAGAACAGATTTTAAACA
TTTTAAGTTTAGAAATTTTGAAGTTTTCTTTAGAATATTTATGAAATTATTGTCAATAAA
CCTATTCTTTAAGATCCTGAGACCTTTTGATATTTTTATTTTAATTGTGCCATGGACCAT
TTGTAAACTGATTGATTTACTTTTGTTGGATATTAGTTGAAGGTTTAGCATCATGACTTT
GAGGTCTGTGGTTTTATTTGTAAACTTGCAATTACTATTTTTGCAAGGGCAAATGTATTT
CTTTATTAAATAAAGTACAATAATGGTGAATGTACCAAAATGCCATCACTCAACTCTATG
AGAGATCTGCATTTTAATCTATAGTTTAATAGTTTTAATATTTATTAGATATTCTTATGT
TGATCTTAGATCAAACTTGTTGCTGTTTATACAGATAATTGTAGAATGCTTATGGAATAT
TTTCTTTAGCGTAGGTGGAATACTTTAGTAGTTAAACCAGGAAACCTTGTTCAGCTGGTT
TAAGATATTGATGCCCGTTGGGAAGTAAATTTCCTCAAGTATGCATAGGTGCACTTACAC
AGACTTTGCTTCGTAAAAAATGTCAGTTCTAATAGTAACTGATTGAGATGTGTATTTTTG
AAAGGCTAATTTTAGGCACATTTTTCTTAACACATCAGCAAAGTCATATTATGAGATCTA
AATGGAAAATTAAGACCTCAGTAATTTAAAATACTATTTTCTGTTTGGCCTTGAGCAGAT
TGTTTACCTGTTAGACTCTAGACTCTGAACCCAACATGTGAAAAGATTTGAAATGCTGAT
GAAAGTGAGAATATATATAATATGTTTTTAGCACTTTTCCCTTAAAAGAAAATGAAGCAT
TTATCCAAGTGCATTTAAAAAAAAAAACGGTATCTTTCTGATTTTGAAAATGTTGGAAAA
CAGAGATGAGTAGTGGAAAATGCCATATTTTAAATGTTGATTATTAGGTAAATTTATTTC
ACTTAAGAGTTTATTATAACTATTCCTTTCAAAAGTGCAGCTGGAGCAGTGGAATTGCCC
ATCAGAGCTTTAAAACCCTCTGGGTTGGAAAGGCATCCCAGAAGTCCTGGGTCAGAAGGT
GTGGCCTGTTAAAGTATGGAGGTTCAGAGTATTTTGTTTTGCTGGTGTAGATAGGCATGT
ACTTATGCATTTTTGCATTTGTAAAATCAGCAACTTTTCAAATAATGTAACTGTAATATA
CTAGTTTACTTAAAAAGGTACTTGGGGCAGAATCTGAAGCTATGATGTTTGATTATGAGA
AATGTAACATGGTAAGGATGAAAATGCAACTTGTAGAACCAAAGGAAATAAAAATTTTGA
ATAGTGTTTCAAAATGTCTTCTTAACAGGAATTTCTTAAATATATTGGTTTTTGATCAAA
TGAAGCTCAGTTCTCTCTTGAGATTTGTGCTAATCATAAAATGGATGAATGCAAAAAAAC
TTGTAATTTCATATGGAATTATTATAATTAGGTTTATTGGATTATTGGCCTAGTAAGAAT
GCTAGTATGTATTGGTTAGAATACATCTAATATTTCACATTTTAAAAATAATCAGTACAC
TTTTCTTCAGCATTTTCTTTTATCTCAACTTGGAGCCTAGATTACTTTGCCAAATAAATG
TATTATTTTCATAATGCAATAAAATATAAATTAGAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TAGTGACCTATTCTTTATTTTGTTGAGGGATATTTTGCCAATGAGAACAGATTTTAAACA
TTTTAAGTTTAGAAATTTTGAAGTTTTCTTTAGAATATTTATGAAATTATTGTCAATAAA
CCTATTCTTTAAGATCCTGAGACCTTTTGATATTTTTATTTTAATTGTGCCATGGACCAT
TTGTAAACTGATTGATTTACTTTTGTTGGATATTAGTTGAAGGTTTAGCATCATGACTTT
GAGGTCTGTGGTTTTATTTGTAAACTTGCAATTACTATTTTTGCAAGGGCAAATGTATTT
CTTTATTAAATAAAGTACAATAATGGTGAATGTACCAAAATGCCATCACTCAACTCTATG
AGAGATCTGCATTTTAATCTATAGTTTAATAGTTTTAATATTTATTAGATATTCTTATGT
TGATCTTAGATCAAACTTGTTGCTGTTTATACAGATAATTGTAGAATGCTTATGGAATAT
TTTCTTTAGCGTAGGTGGAATACTTTAGTAGTTAAACCAGGAAACCTTGTTCAGCTGGTT
TAAGATATTGATGCCCGTTGGGAAGTAAATTTCCTCAAGTATGCATAGGTGCACTTACAC
AGACTTTGCTTCGTAAAAAATGTCAGTTCTAATAGTAACTGATTGAGATGTGTATTTTTG
AAAGGCTAATTTTAGGCACATTTTTCTTAACACATCAGCAAAGTCATATTATGAGATCTA
AATGGAAAATTAAGACCTCAGTAATTTAAAATACTATTTTCTGTTTGGCCTTGAGCAGAT
TGTTTACCTGTTAGACTCTAGACTCTGAACCCAACATGTGAAAAGATTTGAAATGCTGAT
GAAAGTGAGAATATATATAATATGTTTTTAGCACTTTTCCCTTAAAAGAAAATGAAGCAT
TTATCCAAGTGCATTTAAAAAAAAAAACGGTATCTTTCTGATTTTGAAAATGTTGGAAAA
CAGAGATGAGTAGTGGAAAATGCCATATTTTAAATGTTGATTATTAGGTAAATTTATTTC
ACTTAAGAGTTTATTATAACTATTCCTTTCAAAAGTGCAGCTGGAGCAGTGGAATTGCCC
ATCAGAGCTTTAAAACCCTCTGGGTTGGAAAGGCATCCCAGAAGTCCTGGGTCAGAAGGT
GTGGCCTGTTAAAGTATGGAGGTTCAGAGTATTTTGTTTTGCTGGTGTAGATAGGCATGT
ACTTATGCATTTTTGCATTTGTAAAATCAGCAACTTTTCAAATAATGTAACTGTAATATA
CTAGTTTACTTAAAAAGGTACTTGGGGCAGAATCTGAAGCTATGATGTTTGATTATGAGA
AATGTAACATGGTAAGGATGAAAATGCAACTTGTAGAACCAAAGGAAATAAAAATTTTGA
ATAGTGTTTCAAAATGTCTTCTTAACAGGAATTTCTTAAATATATTGGTTTTTGATCAAA
TGAAGCTCAGTTCTCTCTTGAGATTTGTGCTAATCATAAAATGGATGAATGCAAAAAAAC
TTGTAATTTCATATGGAATTATTATAATTAGGTTTATTGGATTATTGGCCTAGTAAGAAT
GCTAGTATGTATTGGTTAGAATACATCTAATATTTCACATTTTAAAAATAATCAGTACAC
TTTTCTTCAGCATTTTCTTTTATCTCAACTTGGAGCCTAGATTACTTTGCCAAATAAATG
TATTATTTTCATAATGCAATAAAATATAAATTAGAA

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

More info

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

Help | Less info


               
               236-351, - strand, RNAz p=0.71383
               

               
               592-708, - strand, RNAz p=0.995412

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


               
               236-351, - strand, RNAz p=0.71383
               

               
               592-708, - strand, RNAz p=0.995412

Similar Transcript(s): 2 entry(ies)

More info

Similar Transcript(s): 2 entry(ies)

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               592-708, AJ676129 KN224 Bos taurus cDNA clone KN224-020_E14, mRNA sequence 
(emb|AJ676129.1|), blast E-value=5e-22, identity=89.08% 
               

               
               592-708, UMC-pd12_14end-007-b03 Endometrium pregnant gilt day 12 & 14 
(gb|CO994745.1|), blast E-value=0, identity=100%

Similar Transcript(s): 2 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


               
               592-708, AJ676129 KN224 Bos taurus cDNA clone KN224-020_E14, mRNA sequence 
(emb|AJ676129.1|), blast E-value=5e-22, identity=89.08% 
               

               
               592-708, UMC-pd12_14end-007-b03 Endometrium pregnant gilt day 12 & 14 
(gb|CO994745.1|), blast E-value=0, identity=100%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1716, gnl|bosTau2|chr22 (21135404-21137090)
               

               
               1-1716, gnl|Hg17|chr3 (73199433-73201037)
               

               
               1-1716, gnl|Mm7|chr6 (100958582-100960111)

Aligned organism(s): 3 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


               
               1-1716, gnl|bosTau2|chr22 (21135404-21137090)
               

               
               1-1716, gnl|Hg17|chr3 (73199433-73201037)
               

               
               1-1716, gnl|Mm7|chr6 (100958582-100960111)

Expressed library(ies): 9 entry(ies)

More info

Expressed library(ies): 9 entry(ies)

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               fco (0.471624)
               

               
               gul (0.177588)
               

               
               mga (0.160205)
               

               
               bfe (0.149858)
               

               
               fat (0.147427)
               

               
               spl (0.143184)
               

               
               nmm (0.132802)
               

               
               kid (0.129735)
               

               
               sug (0.127291)

Expressed library(ies): 9 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


               
               fco (0.471624)
               

               
               gul (0.177588)
               

               
               mga (0.160205)
               

               
               bfe (0.149858)
               

               
               fat (0.147427)
               

               
               spl (0.143184)
               

               
               nmm (0.132802)
               

               
               kid (0.129735)
               

               
               sug (0.127291)

	236-351, - strand, RNAz p=0.71383
	592-708, - strand, RNAz p=0.995412

	592-708, AJ676129 KN224 Bos taurus cDNA clone KN224-020_E14, mRNA sequence (emb\|AJ676129.1\|), blast E-value=5e-22, identity=89.08%
	592-708, UMC-pd12_14end-007-b03 Endometrium pregnant gilt day 12 & 14 (gb\|CO994745.1\|), blast E-value=0, identity=100%

	1-1716, gnl\|bosTau2\|chr22 (21135404-21137090)
	1-1716, gnl\|Hg17\|chr3 (73199433-73201037)
	1-1716, gnl\|Mm7\|chr6 (100958582-100960111)

	fco (0.471624)
	gul (0.177588)
	mga (0.160205)
	bfe (0.149858)
	fat (0.147427)
	spl (0.143184)
	nmm (0.132802)
	kid (0.129735)
	sug (0.127291)