Non-Coding RNA Search

Ss1.1-rtra02_e10.5.5

Sequence:


               
               TCTGGCTTGAAGAAGCCATATTTGGCATCTCGCCACTGAAGTGAAGGGGCTGGAGGTTTC
TGGAGGCCCCTTCACTTGCCAGTCCTACAGGAAGACTGAGTTACTTTCCTGGTCTCGTTA
TTCTCCTTTAGCTGCGTAAAAGCAAGTTCTGGGTGCTTGCAAGTATATGACAGGTTAGGA
AGGAGCCAAGAAATATTCATTCTGATCCGCCAATGAGATAGCCTAAAGGCATCAATGTTG
GTAGCTGGGAGTGGGGAGGGAGTTTTGTTTCTAAACTATGCACTGTCAGGTCTTTTTTCG
CATTCACTTATGTATTCATATGGTTATACAGCAGGAGCCCCGGTACTGGAGTAACAAAAT
TCTTTCCCTTCCCCAGTTCCTGATGGCTACCTAGGGACCTCCAGCTTCCCATTAGTTTCT
TCCTTAGGCTTCTATAAACTCAGTGGCCCAAGATTGCAAAAATCTGACATACTTTGCAAA
AATAAGAGGGTAGCAAATTTAGGCTCTCTTCTAAATCACTTGTGTAATATGAGTGCCTTT
GCAGCTTCTCCCCAAAGTGCTACTTACGTTTCCCAAGGTTTTTTCTATTTGAATTATGTT
TCGTTTCAGGCCTCTTTTTTGGACATGTGGCAACAGAAACCTCCTTTGTCTAGAGTGATT
CTCCTCTTCTAAGCCCAGAGAGACCAGACCAGGTGAATGTAGGTGGAAAAGATCAAGATG
GTACCTCTCTGTATTAACCCCGACTGACACCATGTTTTGAAAGGGTTTACGATCCAGGAT
GGATTCATATTTAGAATGTAATGCGAAAGGTAAACTGTTTAGAGGGCAGATGCAATTGTG
GCAAGTGACCTGCCAATAAAGTAGGTGCAGCCATAGAAGCTGGCATAGGCTTACCCTTTA
TGGTGCTTTCTCCCTGTGAACATATCAGGCTCGTGTTGTTTTTTTCTTTTTTCTTTTCTG
TTCAGAGCTGTTGGCTTTAAGAAGTTAAGTGAAAACACCTTCAGCTTTATAATGTCCTCT
GTACACCACCTTACATACCCATCTCGCAGCCTCCAGCTACACTCAGCTAAGGGCATGAGA
TTAACCTAGTGCCTGTGTTCTAGACCATTTCTGAGGTCTCTTAGCCACCCAAGGAGACAG
GGCTTCGACACTGTCCTCCATGCCTTCAGCAACCCCTGTCACAGCTAAGGTACACACCTA
TCCCTTTGGCTACTCCACTTCCACCCCTGGCACAGAGGTCGTGTGCTGCTTATGTCTAAA
GGGATCCCCTATATTTAACTGCCTCAATGACCTAACCTCTTTCTTCTCATGTGCCAGATG
TTAAGATGAAGGAGGAATACAACACATACACAAGCCTCAGCTGTTTAAATATGTTTTTAC
CGGGGCTCAGTTTTCTCAGATGGTATTTATTACCAGTGGCAAGCCTAACTCCTTAGGTTT
ACAGGAAGTATGCATATTTTTATAAAACAATTGTATGTCCTCCCCATATTTTGCTGTATT
AATATTTGCCTCTAACTAACAATTTGCAGCTGTTTCACCTTTTCCTCATTTGTCTCTTAG
TCAAAGGCCTTGTTGGAGGGGACAGAGCACAGGAACAGCCTTGATAGTCTGTAATTATTG
TACAAATATTTTAATAGCATATAAATAAGTATATTCCTTTTATTTTGAAAAAATCAGACA
CTGCCTTTTGTGTGTTTGCTGCCTGTGGCACCCTTTTTTAAAAGACTGTTACATATTAAA
ATAGTGTACATATATATAAATATTACCTCTTTTGCTGTACAGTTGTGATAGACCAGACGG
AAGATTTTATTTTTTGTGTGCTTTTTATAAAAAAAAAAATTAACACACTAAAGAAAATCT
TGCTGATGTGATTGTAATGTACCTATGTAACTTATTTACTTTTGAATGTTCTTCTGTATC
CTTTAAACCTTTTATTAAATAAGG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TCTGGCTTGAAGAAGCCATATTTGGCATCTCGCCACTGAAGTGAAGGGGCTGGAGGTTTC
TGGAGGCCCCTTCACTTGCCAGTCCTACAGGAAGACTGAGTTACTTTCCTGGTCTCGTTA
TTCTCCTTTAGCTGCGTAAAAGCAAGTTCTGGGTGCTTGCAAGTATATGACAGGTTAGGA
AGGAGCCAAGAAATATTCATTCTGATCCGCCAATGAGATAGCCTAAAGGCATCAATGTTG
GTAGCTGGGAGTGGGGAGGGAGTTTTGTTTCTAAACTATGCACTGTCAGGTCTTTTTTCG
CATTCACTTATGTATTCATATGGTTATACAGCAGGAGCCCCGGTACTGGAGTAACAAAAT
TCTTTCCCTTCCCCAGTTCCTGATGGCTACCTAGGGACCTCCAGCTTCCCATTAGTTTCT
TCCTTAGGCTTCTATAAACTCAGTGGCCCAAGATTGCAAAAATCTGACATACTTTGCAAA
AATAAGAGGGTAGCAAATTTAGGCTCTCTTCTAAATCACTTGTGTAATATGAGTGCCTTT
GCAGCTTCTCCCCAAAGTGCTACTTACGTTTCCCAAGGTTTTTTCTATTTGAATTATGTT
TCGTTTCAGGCCTCTTTTTTGGACATGTGGCAACAGAAACCTCCTTTGTCTAGAGTGATT
CTCCTCTTCTAAGCCCAGAGAGACCAGACCAGGTGAATGTAGGTGGAAAAGATCAAGATG
GTACCTCTCTGTATTAACCCCGACTGACACCATGTTTTGAAAGGGTTTACGATCCAGGAT
GGATTCATATTTAGAATGTAATGCGAAAGGTAAACTGTTTAGAGGGCAGATGCAATTGTG
GCAAGTGACCTGCCAATAAAGTAGGTGCAGCCATAGAAGCTGGCATAGGCTTACCCTTTA
TGGTGCTTTCTCCCTGTGAACATATCAGGCTCGTGTTGTTTTTTTCTTTTTTCTTTTCTG
TTCAGAGCTGTTGGCTTTAAGAAGTTAAGTGAAAACACCTTCAGCTTTATAATGTCCTCT
GTACACCACCTTACATACCCATCTCGCAGCCTCCAGCTACACTCAGCTAAGGGCATGAGA
TTAACCTAGTGCCTGTGTTCTAGACCATTTCTGAGGTCTCTTAGCCACCCAAGGAGACAG
GGCTTCGACACTGTCCTCCATGCCTTCAGCAACCCCTGTCACAGCTAAGGTACACACCTA
TCCCTTTGGCTACTCCACTTCCACCCCTGGCACAGAGGTCGTGTGCTGCTTATGTCTAAA
GGGATCCCCTATATTTAACTGCCTCAATGACCTAACCTCTTTCTTCTCATGTGCCAGATG
TTAAGATGAAGGAGGAATACAACACATACACAAGCCTCAGCTGTTTAAATATGTTTTTAC
CGGGGCTCAGTTTTCTCAGATGGTATTTATTACCAGTGGCAAGCCTAACTCCTTAGGTTT
ACAGGAAGTATGCATATTTTTATAAAACAATTGTATGTCCTCCCCATATTTTGCTGTATT
AATATTTGCCTCTAACTAACAATTTGCAGCTGTTTCACCTTTTCCTCATTTGTCTCTTAG
TCAAAGGCCTTGTTGGAGGGGACAGAGCACAGGAACAGCCTTGATAGTCTGTAATTATTG
TACAAATATTTTAATAGCATATAAATAAGTATATTCCTTTTATTTTGAAAAAATCAGACA
CTGCCTTTTGTGTGTTTGCTGCCTGTGGCACCCTTTTTTAAAAGACTGTTACATATTAAA
ATAGTGTACATATATATAAATATTACCTCTTTTGCTGTACAGTTGTGATAGACCAGACGG
AAGATTTTATTTTTTGTGTGCTTTTTATAAAAAAAAAAATTAACACACTAAAGAAAATCT
TGCTGATGTGATTGTAATGTACCTATGTAACTTATTTACTTTTGAATGTTCTTCTGTATC
CTTTAAACCTTTTATTAAATAAGG

Predicted RNA structure(s): 3 entry(ies)

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Predicted RNA structure(s): 3 entry(ies)

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               1-148, + strand, RNAz p=0.999979
               

               
               1077-1231, - strand, RNAz p=0.988847
               

               
               1272-1387, - strand, RNAz p=0.907666

Predicted RNA structure(s): 3 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


               
               1-148, + strand, RNAz p=0.999979
               

               
               1077-1231, - strand, RNAz p=0.988847
               

               
               1272-1387, - strand, RNAz p=0.907666

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               39-102, - strand, RNAmicro p=0.943658

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


               
               39-102, - strand, RNAmicro p=0.943658

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               1-82, 609398 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB433111.1|), blast 
E-value=0.0000000000002, identity=87.8% 
               

               
               1-82, 685797 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB437901.1|), blast 
E-value=0.0000000000002, identity=87.8% 
               

               
               1-82, 696403 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB445152.1|), blast 
E-value=0.0000000000002, identity=87.8% 
               

               
               1-82, 697171 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB445788.1|), blast 
E-value=0.0000000000002, identity=87.8% 
               

               
               1-82, LB02923.CR_G08 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV920916.1|), 
blast E-value=0.0000000000002, identity=87.8% 
               

               
               1-82, LB03080.CR_G18 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE385738.1|), 
blast E-value=0.0000000000002, identity=87.8%

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


               
               1-82, 609398 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB433111.1|), blast 
E-value=0.0000000000002, identity=87.8% 
               

               
               1-82, 685797 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB437901.1|), blast 
E-value=0.0000000000002, identity=87.8% 
               

               
               1-82, 696403 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB445152.1|), blast 
E-value=0.0000000000002, identity=87.8% 
               

               
               1-82, 697171 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB445788.1|), blast 
E-value=0.0000000000002, identity=87.8% 
               

               
               1-82, LB02923.CR_G08 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV920916.1|), 
blast E-value=0.0000000000002, identity=87.8% 
               

               
               1-82, LB03080.CR_G18 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE385738.1|), 
blast E-value=0.0000000000002, identity=87.8%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of BC036475, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of BC036475, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1944, gnl|bosTau2|chr10 (60282441-60280506)
               

               
               1-1944, gnl|Hg17|chr14 (73253849-73251591)
               

               
               1-1944, gnl|Mm7|chr12 (82147013-82145116)

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


               
               1-1944, gnl|bosTau2|chr10 (60282441-60280506)
               

               
               1-1944, gnl|Hg17|chr14 (73253849-73251591)
               

               
               1-1944, gnl|Mm7|chr12 (82147013-82145116)

Expressed library(ies): 18 entry(ies)

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Expressed library(ies): 18 entry(ies)

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               lin (0.728014)
               

               
               pro (0.512033)
               

               
               tra (0.246184)
               

               
               eep (0.245128)
               

               
               mgp (0.230681)
               

               
               jca (0.22792)
               

               
               jej (0.197844)
               

               
               nep (0.183925)
               

               
               gul (0.177588)
               

               
               eye (0.170503)
               

               
               fhi (0.169578)
               

               
               csp (0.161186)
               

               
               isp (0.150376)
               

               
               ste (0.135208)
               

               
               lyg (0.133103)
               

               
               ret (0.128733)
               

               
               sug (0.127291)
               

               
               cty (0.10408)

Expressed library(ies): 18 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


               
               lin (0.728014)
               

               
               pro (0.512033)
               

               
               tra (0.246184)
               

               
               eep (0.245128)
               

               
               mgp (0.230681)
               

               
               jca (0.22792)
               

               
               jej (0.197844)
               

               
               nep (0.183925)
               

               
               gul (0.177588)
               

               
               eye (0.170503)
               

               
               fhi (0.169578)
               

               
               csp (0.161186)
               

               
               isp (0.150376)
               

               
               ste (0.135208)
               

               
               lyg (0.133103)
               

               
               ret (0.128733)
               

               
               sug (0.127291)
               

               
               cty (0.10408)

	1-148, + strand, RNAz p=0.999979
	1077-1231, - strand, RNAz p=0.988847
	1272-1387, - strand, RNAz p=0.907666

	1-82, 609398 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB433111.1\|), blast E-value=0.0000000000002, identity=87.8%
	1-82, 685797 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB437901.1\|), blast E-value=0.0000000000002, identity=87.8%
	1-82, 696403 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb\|CB445152.1\|), blast E-value=0.0000000000002, identity=87.8%
	1-82, 697171 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB445788.1\|), blast E-value=0.0000000000002, identity=87.8%
	1-82, LB02923.CR_G08 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|DV920916.1\|), blast E-value=0.0000000000002, identity=87.8%
	1-82, LB03080.CR_G18 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE385738.1\|), blast E-value=0.0000000000002, identity=87.8%

	1-1944, gnl\|bosTau2\|chr10 (60282441-60280506)
	1-1944, gnl\|Hg17\|chr14 (73253849-73251591)
	1-1944, gnl\|Mm7\|chr12 (82147013-82145116)

	lin (0.728014)
	pro (0.512033)
	tra (0.246184)
	eep (0.245128)
	mgp (0.230681)
	jca (0.22792)
	jej (0.197844)
	nep (0.183925)
	gul (0.177588)
	eye (0.170503)
	fhi (0.169578)
	csp (0.161186)
	isp (0.150376)
	ste (0.135208)
	lyg (0.133103)
	ret (0.128733)
	sug (0.127291)
	cty (0.10408)