Non-Coding RNA Search

Ss1.1-rspc030_p13.5

Sequence:


               
               GAGATTTGTATTGAGTATAGAAATGATGTTTCCTATCTAGTTTGTAAATAATCATGGTGC
ACTTGAGGGGTCTCTTGGAAACTCCTGGGGGCAAGAATCACTATTCTGAAAATGTATAGA
CTGGGATTTAGCTGCTGCATTTTGCCTTTCTTAAATAATTATATTTTGGAATGTAACCCC
TGTTCTGTCTTCATTGACAGGATTTGCTTGTGTTGTGAAACACTAACACAAGAGCTTCCA
CTGCCTGGGCTGTGCCTAGGTAATGCTATTTCTTCTATATCCCCTGCCTTCTTTATCCCA
AATCCCACTCAGCATATCTTCAAAACTAGGTTGTGAAACCAACTTTGGATGGTTCTAGCC
AGTGAATTATTACTTCCATTGTTGGTTCCCTTTCTGGTACCTCTGGTAATAAACAGATTG
AAAAGGGTGGGAAAGTTTCCTCTGCAAATTGCAGAGGGAACAAATTCTTTGTTGATTTTT
GTGCTACTTGCCTTTTTAGACCTGCTTATCAGCATTCAACCTTCCCACCTCTAAAGGTTT
TTGAAGAAGCTTGAAGTAGGTAATGAGTGCCTCTCAGCTTCTCATTATCCCTCCCACTTC
TCTTTACCCAGGAGATTTCATTCAATGCCTTAGCCAAGGAGTCCAGCACCTGTCTTCCCT
GCTAATCATTGTCCTTGGAGATGATAGTATTTTAATCCAGGTATAGCAGTTGCCCATTAG
TTCTTTGCTTGTCTTGTCCTCACATTTCCTCCTGACTTCCCAAGGCTTTTGTGGCTTTTG
AGGGTCAGCCAAGGAGCAGGCAAGTAAGCGAGTAATCCTCAGGAAAAGAAGGACTATTCT
GCTTCTGAACACTGTTCCCTTTTTTAGAAGAAAATAGACAAATAGGTAGTATTCAGTTCT
TGATGGGAAGATATTTGACTCTGTTTATGAGAGATGTTCAAAGATGGAAATGAGAGATGA
TCCCAGGTGTTCAAGGAAGGCTGCAGATGTCATTTACAGACCCCCATAATGGTGTTTTCA
AGACCTCTTAGAAGTAGGAAATTGTTAGGGCTAATTTGAGGAGGGCTCAGTCTTCAGAAA
AATCCTGCAGTCTTGATAGAAATCTAAAATCTCCAAAAACTCCTACCCTTTAACCTTACC
CCAGGAGAAACTGATCTATAAGAATTACATGTGTGACTATGAAAGATGGAGTTGAGTGAG
GAGGTGAGGAATTGGGAGGATAGTGAGCTCTCACCCTAACTCTATAAAAAGCATGATCTC
AGTAGACCAATAATTCGCCTTTTTATACATCTGTAAATAAATGGAATGTTTTTCAGAATA
TAATTATGTCAGATTTAGCTTTTTCTTTTATATATTAAATATATATCTTTCTTTTTCTGC
TTTTGAAAAAATGACTATTTTTTTAGAAACCTAAGAACAAATTTGGTGAGTAGAAGGGAG
AATGTATAAATTTGAAATAAATCAGTTATAATAATTAAAACAGGACTTGCTGTTGGGAGG
TTTGTGCTGAGTTGGAGTAGAGAATCATAATGCCCTGAGACATATTTAGAAGAGGTGCCA
CTGAAGGAGTTTGATCAGAGGAATTCTTCACTGTTTTTAAAGTTTCTAACAGCTATTTGG
AAGAGGTTTTTGGTATTCTAATCCTTGCAGCATGTTTTACTTGGAGACTTTGAAGTTTTG
TACAACTTGATGGCAATTATTTGTCTCAAGAAGTGCAGTGAAGCAAGACTACTCTCATAG
TACCAATGTGTGCAGGGTCTAATATGCCTGTTACCCTGGGGAATAATGGAATACAAACAT
AGTCTTAGTGGCTAAGGACAGTAGATGTTCTTAAAGCAAGCTATAATATAGTTAATTTAT
GAAATTTTTTTTTATTAAAGGAGTCCTTTAGACATTGAACTACTCTAAGGTCACTAAGAG
ATCAAGTCCAGTTATATAAACTTTAAACAAATTACTGTATGTAATATTTCCACCAGAATT
ACGATGAAATAATAAACAATAGGTCTTTCTATAACAAGTTTGAAAATGTTTTGAACACAG
AAAGCAGACAATCCATATATTATTTGGAGCAAGTTTTAGTAGTATAACTATCCCCCCCCC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAGATTTGTATTGAGTATAGAAATGATGTTTCCTATCTAGTTTGTAAATAATCATGGTGC
ACTTGAGGGGTCTCTTGGAAACTCCTGGGGGCAAGAATCACTATTCTGAAAATGTATAGA
CTGGGATTTAGCTGCTGCATTTTGCCTTTCTTAAATAATTATATTTTGGAATGTAACCCC
TGTTCTGTCTTCATTGACAGGATTTGCTTGTGTTGTGAAACACTAACACAAGAGCTTCCA
CTGCCTGGGCTGTGCCTAGGTAATGCTATTTCTTCTATATCCCCTGCCTTCTTTATCCCA
AATCCCACTCAGCATATCTTCAAAACTAGGTTGTGAAACCAACTTTGGATGGTTCTAGCC
AGTGAATTATTACTTCCATTGTTGGTTCCCTTTCTGGTACCTCTGGTAATAAACAGATTG
AAAAGGGTGGGAAAGTTTCCTCTGCAAATTGCAGAGGGAACAAATTCTTTGTTGATTTTT
GTGCTACTTGCCTTTTTAGACCTGCTTATCAGCATTCAACCTTCCCACCTCTAAAGGTTT
TTGAAGAAGCTTGAAGTAGGTAATGAGTGCCTCTCAGCTTCTCATTATCCCTCCCACTTC
TCTTTACCCAGGAGATTTCATTCAATGCCTTAGCCAAGGAGTCCAGCACCTGTCTTCCCT
GCTAATCATTGTCCTTGGAGATGATAGTATTTTAATCCAGGTATAGCAGTTGCCCATTAG
TTCTTTGCTTGTCTTGTCCTCACATTTCCTCCTGACTTCCCAAGGCTTTTGTGGCTTTTG
AGGGTCAGCCAAGGAGCAGGCAAGTAAGCGAGTAATCCTCAGGAAAAGAAGGACTATTCT
GCTTCTGAACACTGTTCCCTTTTTTAGAAGAAAATAGACAAATAGGTAGTATTCAGTTCT
TGATGGGAAGATATTTGACTCTGTTTATGAGAGATGTTCAAAGATGGAAATGAGAGATGA
TCCCAGGTGTTCAAGGAAGGCTGCAGATGTCATTTACAGACCCCCATAATGGTGTTTTCA
AGACCTCTTAGAAGTAGGAAATTGTTAGGGCTAATTTGAGGAGGGCTCAGTCTTCAGAAA
AATCCTGCAGTCTTGATAGAAATCTAAAATCTCCAAAAACTCCTACCCTTTAACCTTACC
CCAGGAGAAACTGATCTATAAGAATTACATGTGTGACTATGAAAGATGGAGTTGAGTGAG
GAGGTGAGGAATTGGGAGGATAGTGAGCTCTCACCCTAACTCTATAAAAAGCATGATCTC
AGTAGACCAATAATTCGCCTTTTTATACATCTGTAAATAAATGGAATGTTTTTCAGAATA
TAATTATGTCAGATTTAGCTTTTTCTTTTATATATTAAATATATATCTTTCTTTTTCTGC
TTTTGAAAAAATGACTATTTTTTTAGAAACCTAAGAACAAATTTGGTGAGTAGAAGGGAG
AATGTATAAATTTGAAATAAATCAGTTATAATAATTAAAACAGGACTTGCTGTTGGGAGG
TTTGTGCTGAGTTGGAGTAGAGAATCATAATGCCCTGAGACATATTTAGAAGAGGTGCCA
CTGAAGGAGTTTGATCAGAGGAATTCTTCACTGTTTTTAAAGTTTCTAACAGCTATTTGG
AAGAGGTTTTTGGTATTCTAATCCTTGCAGCATGTTTTACTTGGAGACTTTGAAGTTTTG
TACAACTTGATGGCAATTATTTGTCTCAAGAAGTGCAGTGAAGCAAGACTACTCTCATAG
TACCAATGTGTGCAGGGTCTAATATGCCTGTTACCCTGGGGAATAATGGAATACAAACAT
AGTCTTAGTGGCTAAGGACAGTAGATGTTCTTAAAGCAAGCTATAATATAGTTAATTTAT
GAAATTTTTTTTTATTAAAGGAGTCCTTTAGACATTGAACTACTCTAAGGTCACTAAGAG
ATCAAGTCCAGTTATATAAACTTTAAACAAATTACTGTATGTAATATTTCCACCAGAATT
ACGATGAAATAATAAACAATAGGTCTTTCTATAACAAGTTTGAAAATGTTTTGAACACAG
AAAGCAGACAATCCATATATTATTTGGAGCAAGTTTTAGTAGTATAACTATCCCCCCCCC

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

More info

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

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               118-314, - strand, RNAz p=0.995474
               

               
               432-549, - strand, RNAz p=0.758641
               

               
               710-864, + strand, RNAz p=0.996492

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


               
               118-314, - strand, RNAz p=0.995474
               

               
               432-549, - strand, RNAz p=0.758641
               

               
               710-864, + strand, RNAz p=0.996492

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               720-840, + strand, RNAmicro p=0.995378

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


               
               720-840, + strand, RNAmicro p=0.995378

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               122-314, LeukoN5_7_A06.g1_A027 Unstimulated peripheral blood leukocytes N5 
(gb|CD535730.1|), blast E-value=0, identity=97.41% 
               

               
               122-314, LeukoN6_3_H09.b1_A028 Unstimulated peripheral blood leukocytes N6 
(gb|CD536079.1|), blast E-value=0, identity=96.37% 
               

               
               118-314, AGENCOURT_16391115 NIH_MGC_228 Homo sapiens cDNA clone 
(gb|CK002839.1|), blast E-value=0, identity=96.46% 
               

               
               118-314, 17000532704699 GRN_EB Homo sapiens cDNA 5', mRNA sequence 
(gb|CN386648.1|), blast E-value=0, identity=96.46% 
               

               
               118-314, LB02532.CR_J10 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb|EE340178.1|), 
blast E-value=0, identity=95.94% 
               

               
               118-314, LB02537.CR_F01 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb|EE341622.1|), 
blast E-value=0, identity=95.94%

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


               
               122-314, LeukoN5_7_A06.g1_A027 Unstimulated peripheral blood leukocytes N5 
(gb|CD535730.1|), blast E-value=0, identity=97.41% 
               

               
               122-314, LeukoN6_3_H09.b1_A028 Unstimulated peripheral blood leukocytes N6 
(gb|CD536079.1|), blast E-value=0, identity=96.37% 
               

               
               118-314, AGENCOURT_16391115 NIH_MGC_228 Homo sapiens cDNA clone 
(gb|CK002839.1|), blast E-value=0, identity=96.46% 
               

               
               118-314, 17000532704699 GRN_EB Homo sapiens cDNA 5', mRNA sequence 
(gb|CN386648.1|), blast E-value=0, identity=96.46% 
               

               
               118-314, LB02532.CR_J10 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb|EE340178.1|), 
blast E-value=0, identity=95.94% 
               

               
               118-314, LB02537.CR_F01 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb|EE341622.1|), 
blast E-value=0, identity=95.94%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-2086, gnl|bosTau2|chr10 (25179342-25177255)
               

               
               1-2086, gnl|Hg17|chr15 (39847941-39850059)
               

               
               1-2086, gnl|Mm7|chr2 (119707106-119709349)

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


               
               1-2086, gnl|bosTau2|chr10 (25179342-25177255)
               

               
               1-2086, gnl|Hg17|chr15 (39847941-39850059)
               

               
               1-2086, gnl|Mm7|chr2 (119707106-119709349)

Expressed library(ies): 13 entry(ies)

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Expressed library(ies): 13 entry(ies)

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               cty (0.41632)
               

               
               thg (0.253582)
               

               
               cmu (0.186393)
               

               
               sag (0.182715)
               

               
               tbr (0.154178)
               

               
               ski (0.146735)
               

               
               spl (0.143184)
               

               
               lyg (0.133103)
               

               
               kid (0.129735)
               

               
               ret (0.128733)
               

               
               bla (0.124347)
               

               
               eru (0.120048)
               

               
               spc (0.113366)

Expressed library(ies): 13 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


               
               cty (0.41632)
               

               
               thg (0.253582)
               

               
               cmu (0.186393)
               

               
               sag (0.182715)
               

               
               tbr (0.154178)
               

               
               ski (0.146735)
               

               
               spl (0.143184)
               

               
               lyg (0.133103)
               

               
               kid (0.129735)
               

               
               ret (0.128733)
               

               
               bla (0.124347)
               

               
               eru (0.120048)
               

               
               spc (0.113366)

	118-314, - strand, RNAz p=0.995474
	432-549, - strand, RNAz p=0.758641
	710-864, + strand, RNAz p=0.996492

	122-314, LeukoN5_7_A06.g1_A027 Unstimulated peripheral blood leukocytes N5 (gb\|CD535730.1\|), blast E-value=0, identity=97.41%
	122-314, LeukoN6_3_H09.b1_A028 Unstimulated peripheral blood leukocytes N6 (gb\|CD536079.1\|), blast E-value=0, identity=96.37%
	118-314, AGENCOURT_16391115 NIH_MGC_228 Homo sapiens cDNA clone (gb\|CK002839.1\|), blast E-value=0, identity=96.46%
	118-314, 17000532704699 GRN_EB Homo sapiens cDNA 5', mRNA sequence (gb\|CN386648.1\|), blast E-value=0, identity=96.46%
	118-314, LB02532.CR_J10 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb\|EE340178.1\|), blast E-value=0, identity=95.94%
	118-314, LB02537.CR_F01 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb\|EE341622.1\|), blast E-value=0, identity=95.94%

	1-2086, gnl\|bosTau2\|chr10 (25179342-25177255)
	1-2086, gnl\|Hg17\|chr15 (39847941-39850059)
	1-2086, gnl\|Mm7\|chr2 (119707106-119709349)

	cty (0.41632)
	thg (0.253582)
	cmu (0.186393)
	sag (0.182715)
	tbr (0.154178)
	ski (0.146735)
	spl (0.143184)
	lyg (0.133103)
	kid (0.129735)
	ret (0.128733)
	bla (0.124347)
	eru (0.120048)
	spc (0.113366)