Non-Coding RNA Search

Ss1.1-rret13_n8.5

Sequence:


               
               GGTCTCAGTACTAAATACCAATTTTGGCTGAAGGACCTCTTTGTCTTCCAAAATGTGCCT
AGGGAGTGTTTACCGTTTGTGAGGCAGCTTTGCCTGCTCTTGCATTGTACATCTTACTAC
TCCATTGGGAAGTAGGTTCACTTTCCTCTGGCCATTTGCCTAAGTTAGGCTTTGCTAAAT
CAACCCTACTTTTCCTTTTAGAAAGGTGGTTACATGAGATGTACTTGCAACTGTTCTTTT
CCCATCAAAAATCAGTGAATATTTGCAGAGTATATTATGCTGCTTCCTTAAATCACTTGT
TGCTTTAGGATCAACATTACCTGTACCTTTTATTCTCCCCTTCCTTGCCACCTCAGGTGC
AAATCTGAACTCACTGTCTGCTCTCACATTCTCTTCTCCTTTCCTTTCCCTGTCATCCAT
TTGACTTTATTTTAAATGACTGCATCAATCTTAAAAGACAATTATCAAAACTAAGGAATT
TTTTTTTAAGAAAGTTTGAGTAAGTCCTTCCCCTCATAACTTCAAAAAGCAGCCAGAGTT
GCTATCTAGATTTATGTGGTTCCCTTAAAATGTTTTGTGTATGTGTGGTGTTTTAAAAAA
TCTTACCAGTTAATTGCAGTATGTAGGTTTGAGTGTCATAAATCCTCTTTACATGGTCCC
CTTAAAACAAGTATCCACAACCAATGTGTGCAGTTCATAATATCAGCCCCCACCCATGGA
AGAACAGTGCTTTTTAGAGCTGCTTTGTAGTTCCAGTGTTGGCATATTACCTGAGGGTAT
TGCAACTGTGGGTGCATTCTCTAATTTGTATGGGTAAAGGTGAACTGGCCTTTAGAACTT
CCAAGCTTTTACCTGCTATCTCCATATTTGATAGAATTCCCAGAGTTAATTTCTTTCAAT
GTTAGTAACTTCAGTGGCCCCAGCTGGGATAGGCAAGCCATATTGTATGACAGCTTCCCT
ATTTCACCTACCTTAGTCTTTCTGTCAGAGGGCTCTATTCATGGTCAGCACCAGGGTCTC
CCTGTCTTCTTGAGGGCAATTCTATTGTCTTCTGAAAAGTGCATGCTTCATTTGAACAAT
TTATTGAGCAGTAGATGGATTTTAAGTGATTTACGATATAATGTTGATCCAAAGCGCAGG
ATACCACAGTGGTAAAATTGAGTAGCATATAGTATCATCAGACTCTAAATTCTGTGTAAT
CTGCTGCAACCCAGTTTGTATGTGTTTTATGTGTGTTTAAATAAATATATTAAATACACA
TGTCTATACATACACACATATATAATAGATCCCAAACTGACTAACTTGATTTGAAATGGT
TGAATCTGCAGTGTAACATGTGGTTCAACCATGATTAGGAGCTGAAATTTAGAATGAGAG
AGAAAAGGACTTGATATAACAAAATCTTTTAGCTACAAATCCCGGTATAGAGCACTTGGG
GGATGGGAGGGGGCGGGTTGGTGAGACAATCAGATTGGTAAATTGATTAAATGCTCCTAA
CCCTGTAATTTTGTGCATAGAGCACCCTGTGCTATGGAAATAACTGTTCTTAGATTTTCA
TTGTAACTGGACTGTTCAGGTTGCCCAGAGGGAAAGAACATTCCTAATTCTAATAAAATA
AACTTTTATTTT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGTCTCAGTACTAAATACCAATTTTGGCTGAAGGACCTCTTTGTCTTCCAAAATGTGCCT
AGGGAGTGTTTACCGTTTGTGAGGCAGCTTTGCCTGCTCTTGCATTGTACATCTTACTAC
TCCATTGGGAAGTAGGTTCACTTTCCTCTGGCCATTTGCCTAAGTTAGGCTTTGCTAAAT
CAACCCTACTTTTCCTTTTAGAAAGGTGGTTACATGAGATGTACTTGCAACTGTTCTTTT
CCCATCAAAAATCAGTGAATATTTGCAGAGTATATTATGCTGCTTCCTTAAATCACTTGT
TGCTTTAGGATCAACATTACCTGTACCTTTTATTCTCCCCTTCCTTGCCACCTCAGGTGC
AAATCTGAACTCACTGTCTGCTCTCACATTCTCTTCTCCTTTCCTTTCCCTGTCATCCAT
TTGACTTTATTTTAAATGACTGCATCAATCTTAAAAGACAATTATCAAAACTAAGGAATT
TTTTTTTAAGAAAGTTTGAGTAAGTCCTTCCCCTCATAACTTCAAAAAGCAGCCAGAGTT
GCTATCTAGATTTATGTGGTTCCCTTAAAATGTTTTGTGTATGTGTGGTGTTTTAAAAAA
TCTTACCAGTTAATTGCAGTATGTAGGTTTGAGTGTCATAAATCCTCTTTACATGGTCCC
CTTAAAACAAGTATCCACAACCAATGTGTGCAGTTCATAATATCAGCCCCCACCCATGGA
AGAACAGTGCTTTTTAGAGCTGCTTTGTAGTTCCAGTGTTGGCATATTACCTGAGGGTAT
TGCAACTGTGGGTGCATTCTCTAATTTGTATGGGTAAAGGTGAACTGGCCTTTAGAACTT
CCAAGCTTTTACCTGCTATCTCCATATTTGATAGAATTCCCAGAGTTAATTTCTTTCAAT
GTTAGTAACTTCAGTGGCCCCAGCTGGGATAGGCAAGCCATATTGTATGACAGCTTCCCT
ATTTCACCTACCTTAGTCTTTCTGTCAGAGGGCTCTATTCATGGTCAGCACCAGGGTCTC
CCTGTCTTCTTGAGGGCAATTCTATTGTCTTCTGAAAAGTGCATGCTTCATTTGAACAAT
TTATTGAGCAGTAGATGGATTTTAAGTGATTTACGATATAATGTTGATCCAAAGCGCAGG
ATACCACAGTGGTAAAATTGAGTAGCATATAGTATCATCAGACTCTAAATTCTGTGTAAT
CTGCTGCAACCCAGTTTGTATGTGTTTTATGTGTGTTTAAATAAATATATTAAATACACA
TGTCTATACATACACACATATATAATAGATCCCAAACTGACTAACTTGATTTGAAATGGT
TGAATCTGCAGTGTAACATGTGGTTCAACCATGATTAGGAGCTGAAATTTAGAATGAGAG
AGAAAAGGACTTGATATAACAAAATCTTTTAGCTACAAATCCCGGTATAGAGCACTTGGG
GGATGGGAGGGGGCGGGTTGGTGAGACAATCAGATTGGTAAATTGATTAAATGCTCCTAA
CCCTGTAATTTTGTGCATAGAGCACCCTGTGCTATGGAAATAACTGTTCTTAGATTTTCA
TTGTAACTGGACTGTTCAGGTTGCCCAGAGGGAAAGAACATTCCTAATTCTAATAAAATA
AACTTTTATTTT

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

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

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               40-192, - strand, RNAz p=0.958526
               

               
               1191-1310, - strand, RNAz p=0.989598
               

               
               1427-1543, + strand, RNAz p=0.996435

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


               
               40-192, - strand, RNAz p=0.958526
               

               
               1191-1310, - strand, RNAz p=0.989598
               

               
               1427-1543, + strand, RNAz p=0.996435

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               1266-1323, + strand, RNAmicro p=0.966607

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


               
               1266-1323, + strand, RNAmicro p=0.966607

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               1427-1543, AM022238 KN-252-lymph, Bos sp. Bos sp. cDNA clone C0007400j24 5', 
(emb|AM022238.1|), blast E-value=0, identity=96.58% 
               

               
               1427-1543, AM023162 KN-252-lymph, Bos sp. Bos sp. cDNA clone C0007400j24 3', 
(emb|AM023162.1|), blast E-value=0, identity=96.58% 
               

               
               1427-1543, BovGen_06026 normal cattle brain Bos taurus cDNA clone 
(gb|CO877701.1|), blast E-value=0, identity=96.58% 
               

               
               1427-1543, BovGen_11273 normal cattle brain Bos taurus cDNA clone 
(gb|CO882948.1|), blast E-value=0, identity=96.58% 
               

               
               1427-1543, BovGen_22893 normal cattle brain Bos taurus cDNA clone 
(gb|CO894568.1|), blast E-value=0, identity=96.58% 
               

               
               1427-1543, 1316918 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN528375.1|), 
blast E-value=0, identity=96.58%

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


               
               1427-1543, AM022238 KN-252-lymph, Bos sp. Bos sp. cDNA clone C0007400j24 5', 
(emb|AM022238.1|), blast E-value=0, identity=96.58% 
               

               
               1427-1543, AM023162 KN-252-lymph, Bos sp. Bos sp. cDNA clone C0007400j24 3', 
(emb|AM023162.1|), blast E-value=0, identity=96.58% 
               

               
               1427-1543, BovGen_06026 normal cattle brain Bos taurus cDNA clone 
(gb|CO877701.1|), blast E-value=0, identity=96.58% 
               

               
               1427-1543, BovGen_11273 normal cattle brain Bos taurus cDNA clone 
(gb|CO882948.1|), blast E-value=0, identity=96.58% 
               

               
               1427-1543, BovGen_22893 normal cattle brain Bos taurus cDNA clone 
(gb|CO894568.1|), blast E-value=0, identity=96.58% 
               

               
               1427-1543, 1316918 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN528375.1|), 
blast E-value=0, identity=96.58%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1632, gnl|bosTau2|chr10 (10936614-10938238)
               

               
               1-1632, gnl|Hg17|chr15 (70664311-70665946)
               

               
               1-1632, gnl|Mm7|chr9 (59418618-59417040)

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


               
               1-1632, gnl|bosTau2|chr10 (10936614-10938238)
               

               
               1-1632, gnl|Hg17|chr15 (70664311-70665946)
               

               
               1-1632, gnl|Mm7|chr9 (59418618-59417040)

Expressed library(ies): 15 entry(ies)

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Expressed library(ies): 15 entry(ies)

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               vin (0.332557)
               

               
               ece (0.229305)
               

               
               cty (0.20816)
               

               
               mga (0.160205)
               

               
               hyp (0.142837)
               

               
               cst (0.140036)
               

               
               ssp (0.13552)
               

               
               pla (0.133672)
               

               
               kid (0.129735)
               

               
               ret (0.128733)
               

               
               sug (0.127291)
               

               
               bla (0.124347)
               

               
               clu (0.119646)
               

               
               pgl (0.118483)
               

               
               jca (0.11396)

Expressed library(ies): 15 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


               
               vin (0.332557)
               

               
               ece (0.229305)
               

               
               cty (0.20816)
               

               
               mga (0.160205)
               

               
               hyp (0.142837)
               

               
               cst (0.140036)
               

               
               ssp (0.13552)
               

               
               pla (0.133672)
               

               
               kid (0.129735)
               

               
               ret (0.128733)
               

               
               sug (0.127291)
               

               
               bla (0.124347)
               

               
               clu (0.119646)
               

               
               pgl (0.118483)
               

               
               jca (0.11396)

	40-192, - strand, RNAz p=0.958526
	1191-1310, - strand, RNAz p=0.989598
	1427-1543, + strand, RNAz p=0.996435

	1427-1543, AM022238 KN-252-lymph, Bos sp. Bos sp. cDNA clone C0007400j24 5', (emb\|AM022238.1\|), blast E-value=0, identity=96.58%
	1427-1543, AM023162 KN-252-lymph, Bos sp. Bos sp. cDNA clone C0007400j24 3', (emb\|AM023162.1\|), blast E-value=0, identity=96.58%
	1427-1543, BovGen_06026 normal cattle brain Bos taurus cDNA clone (gb\|CO877701.1\|), blast E-value=0, identity=96.58%
	1427-1543, BovGen_11273 normal cattle brain Bos taurus cDNA clone (gb\|CO882948.1\|), blast E-value=0, identity=96.58%
	1427-1543, BovGen_22893 normal cattle brain Bos taurus cDNA clone (gb\|CO894568.1\|), blast E-value=0, identity=96.58%
	1427-1543, 1316918 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN528375.1\|), blast E-value=0, identity=96.58%

	1-1632, gnl\|bosTau2\|chr10 (10936614-10938238)
	1-1632, gnl\|Hg17\|chr15 (70664311-70665946)
	1-1632, gnl\|Mm7\|chr9 (59418618-59417040)

	vin (0.332557)
	ece (0.229305)
	cty (0.20816)
	mga (0.160205)
	hyp (0.142837)
	cst (0.140036)
	ssp (0.13552)
	pla (0.133672)
	kid (0.129735)
	ret (0.128733)
	sug (0.127291)
	bla (0.124347)
	clu (0.119646)
	pgl (0.118483)
	jca (0.11396)