Non-Coding RNA Search

Ss1.1-rpliv0113_a5.5

Sequence:


               
               TGTATGCTAAATGATGTGTTAAAATTAGGGTTTCGGGTTTCCTTGCCTCTCTATAATACA
CTAGTCTGCCTAAAGATGGTTGTTTCATATTTATAGCATTAATTATCATACCTACCTACT
TTAAACTTTAGGTAGAAAAATGATCTGATTTAAATACAGACACCTATTTTTCTCACATTG
AGTCATACGCAGAATGTAGTTCCAAATGTATTTCATTATTATAGTCACAATATTCAACTA
AAAATTAAGCTCTCTATAATTATACCGACCAAAATCTAGTATTGACATGATCTTGACAGG
CTGGACCTGCAAGATGTGGCTTGAATTTTAACCAGTTATCACATAATCTTTAGTGATCAT
GCATCTAGTTATCATGAGAAATAATTTAAAAGGTTTTGTTGCTGAAAGCAGTAAGTGGTG
CAGTAAAATAGTTAAGTTATTCAAAGAATGTTACCTTCCTTGCAGAAGTAATTTAAGTAC
ATGGGAAAGAGTCTAGACTTTGTTTCTTGCAAAAACAGTACCCTCTGCTTCTGGAAACCT
TTTTCTGCTTACTCTCATTTTTATTGTGGCTTGAGCTATGGTGAGTCTTGGTGTGGATGA
GGCTGGACAATTACTAACCAATAAAATTAGGAATTTGTGCAAATGGTAAACAGAACATTA
TAATTATTTTAAATAATATTAAACATTTTTCTTTTCTTTTAGACATTATAAATTTTTTTT
TTTAAATATCTTTGAAATTTCTTTAAAGTAATGCCAATTTAAGATCTCTCTTAACTGTGG
GGCAAGGGGTTCTAGGCTTTCCAGCTAATTTTGGTATGATAAAAGATTTTTTTCAGGAGC
TGCTCTGAGCAGAAGTATCAGTTCTTTGAATTGGAAACACAATTTTAAATATGTATGATG
GGTATAAAATTTGCCAATGACAATTGAGTTTATTTCTTCTTAAAAAAAAAAAAAAAGACT
TTTTGTTGTTGTTGTTGCACAAAGTCTCAGTTACTATTGGTTGAGACACAACAGCTGTGG
AATTCAGTCCAGGCATGAAGGCTAAATCCTCTTTAGATGTAAAAGGTGCATGTTTCAGTC
CTCCACCACCTTGCACTGTAGACAGCACTGTACCTGTGCGTCGTCTGAAAGCCTCCCGCG
TATACTCCAGCTAAATTATTGTCTGATAGCCTTCGCATTTAACAAACTAGCATGAGGCTT
TTTATATCTAAATGCTACATGATAGACAATTTCAGCTAGCCACATATTGTATGTATGAGA
TTCATAAAGACTTTCAATCATTCATTTCCATTTATCAACTGAAATTTTGTTTAGTATGTG
AAATTTTTTTGAAATGTATAGTGAATAGGATGTTGCACTGGTGGCAATTCATCATGGAGC
ATAATAAAATTAATTTGACCCAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TGTATGCTAAATGATGTGTTAAAATTAGGGTTTCGGGTTTCCTTGCCTCTCTATAATACA
CTAGTCTGCCTAAAGATGGTTGTTTCATATTTATAGCATTAATTATCATACCTACCTACT
TTAAACTTTAGGTAGAAAAATGATCTGATTTAAATACAGACACCTATTTTTCTCACATTG
AGTCATACGCAGAATGTAGTTCCAAATGTATTTCATTATTATAGTCACAATATTCAACTA
AAAATTAAGCTCTCTATAATTATACCGACCAAAATCTAGTATTGACATGATCTTGACAGG
CTGGACCTGCAAGATGTGGCTTGAATTTTAACCAGTTATCACATAATCTTTAGTGATCAT
GCATCTAGTTATCATGAGAAATAATTTAAAAGGTTTTGTTGCTGAAAGCAGTAAGTGGTG
CAGTAAAATAGTTAAGTTATTCAAAGAATGTTACCTTCCTTGCAGAAGTAATTTAAGTAC
ATGGGAAAGAGTCTAGACTTTGTTTCTTGCAAAAACAGTACCCTCTGCTTCTGGAAACCT
TTTTCTGCTTACTCTCATTTTTATTGTGGCTTGAGCTATGGTGAGTCTTGGTGTGGATGA
GGCTGGACAATTACTAACCAATAAAATTAGGAATTTGTGCAAATGGTAAACAGAACATTA
TAATTATTTTAAATAATATTAAACATTTTTCTTTTCTTTTAGACATTATAAATTTTTTTT
TTTAAATATCTTTGAAATTTCTTTAAAGTAATGCCAATTTAAGATCTCTCTTAACTGTGG
GGCAAGGGGTTCTAGGCTTTCCAGCTAATTTTGGTATGATAAAAGATTTTTTTCAGGAGC
TGCTCTGAGCAGAAGTATCAGTTCTTTGAATTGGAAACACAATTTTAAATATGTATGATG
GGTATAAAATTTGCCAATGACAATTGAGTTTATTTCTTCTTAAAAAAAAAAAAAAAGACT
TTTTGTTGTTGTTGTTGCACAAAGTCTCAGTTACTATTGGTTGAGACACAACAGCTGTGG
AATTCAGTCCAGGCATGAAGGCTAAATCCTCTTTAGATGTAAAAGGTGCATGTTTCAGTC
CTCCACCACCTTGCACTGTAGACAGCACTGTACCTGTGCGTCGTCTGAAAGCCTCCCGCG
TATACTCCAGCTAAATTATTGTCTGATAGCCTTCGCATTTAACAAACTAGCATGAGGCTT
TTTATATCTAAATGCTACATGATAGACAATTTCAGCTAGCCACATATTGTATGTATGAGA
TTCATAAAGACTTTCAATCATTCATTTCCATTTATCAACTGAAATTTTGTTTAGTATGTG
AAATTTTTTTGAAATGTATAGTGAATAGGATGTTGCACTGGTGGCAATTCATCATGGAGC
ATAATAAAATTAATTTGACCCAAA

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

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

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               271-388, - strand, RNAz p=0.97683
               

               
               893-1007, - strand, RNAz p=0.759754

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


               
               271-388, - strand, RNAz p=0.97683
               

               
               893-1007, - strand, RNAz p=0.759754

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               271-388, BovGen_18860 normal cattle brain Bos taurus cDNA clone 
(gb|CO890535.1|), blast E-value=0, identity=97.48% 
               

               
               271-388, 1318172 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN529512.1|), 
blast E-value=0, identity=97.48% 
               

               
               271-388, HW_Loin_3_D09 Bos taurus CF-24-HW loin cDNA library Bos taurus 
(gb|DV798214.1|), blast E-value=0, identity=97.48% 
               

               
               271-388, LB02610.CR_B18 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV879476.1|), 
blast E-value=0, identity=97.48% 
               

               
               271-388, LB0298.CR_P19 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV925611.1|), 
blast E-value=0, identity=97.48% 
               

               
               271-388, LB03039.CR_L04 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE377038.1|), 
blast E-value=0, identity=97.48%

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


               
               271-388, BovGen_18860 normal cattle brain Bos taurus cDNA clone 
(gb|CO890535.1|), blast E-value=0, identity=97.48% 
               

               
               271-388, 1318172 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN529512.1|), 
blast E-value=0, identity=97.48% 
               

               
               271-388, HW_Loin_3_D09 Bos taurus CF-24-HW loin cDNA library Bos taurus 
(gb|DV798214.1|), blast E-value=0, identity=97.48% 
               

               
               271-388, LB02610.CR_B18 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV879476.1|), 
blast E-value=0, identity=97.48% 
               

               
               271-388, LB0298.CR_P19 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV925611.1|), 
blast E-value=0, identity=97.48% 
               

               
               271-388, LB03039.CR_L04 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE377038.1|), 
blast E-value=0, identity=97.48%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               3-1404, gnl|bosTau2|chr24 (7282852-7281442)
               

               
               3-1404, gnl|Hg17|chr7 (122917344-122915953)
               

               
               3-1404, gnl|Mm7|chr6 (24558414-24557081)

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


               
               3-1404, gnl|bosTau2|chr24 (7282852-7281442)
               

               
               3-1404, gnl|Hg17|chr7 (122917344-122915953)
               

               
               3-1404, gnl|Mm7|chr6 (24558414-24557081)

Expressed library(ies): 17 entry(ies)

More info

Expressed library(ies): 17 entry(ies)

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               rec (0.519211)
               

               
               pro (0.512033)
               

               
               tra (0.369276)
               

               
               ski (0.29347)
               

               
               liv (0.292569)
               

               
               kid (0.259471)
               

               
               clu (0.239292)
               

               
               cbe (0.239234)
               

               
               gul (0.177588)
               

               
               tbr (0.154178)
               

               
               isp (0.150376)
               

               
               lin (0.145603)
               

               
               lyg (0.133103)
               

               
               ova (0.129132)
               

               
               ret (0.128733)
               

               
               pgl (0.118483)
               

               
               ecc (0.115035)

Expressed library(ies): 17 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


               
               rec (0.519211)
               

               
               pro (0.512033)
               

               
               tra (0.369276)
               

               
               ski (0.29347)
               

               
               liv (0.292569)
               

               
               kid (0.259471)
               

               
               clu (0.239292)
               

               
               cbe (0.239234)
               

               
               gul (0.177588)
               

               
               tbr (0.154178)
               

               
               isp (0.150376)
               

               
               lin (0.145603)
               

               
               lyg (0.133103)
               

               
               ova (0.129132)
               

               
               ret (0.128733)
               

               
               pgl (0.118483)
               

               
               ecc (0.115035)

	271-388, - strand, RNAz p=0.97683
	893-1007, - strand, RNAz p=0.759754

	271-388, BovGen_18860 normal cattle brain Bos taurus cDNA clone (gb\|CO890535.1\|), blast E-value=0, identity=97.48%
	271-388, 1318172 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN529512.1\|), blast E-value=0, identity=97.48%
	271-388, HW_Loin_3_D09 Bos taurus CF-24-HW loin cDNA library Bos taurus (gb\|DV798214.1\|), blast E-value=0, identity=97.48%
	271-388, LB02610.CR_B18 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb\|DV879476.1\|), blast E-value=0, identity=97.48%
	271-388, LB0298.CR_P19 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|DV925611.1\|), blast E-value=0, identity=97.48%
	271-388, LB03039.CR_L04 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE377038.1\|), blast E-value=0, identity=97.48%

	3-1404, gnl\|bosTau2\|chr24 (7282852-7281442)
	3-1404, gnl\|Hg17\|chr7 (122917344-122915953)
	3-1404, gnl\|Mm7\|chr6 (24558414-24557081)

	rec (0.519211)
	pro (0.512033)
	tra (0.369276)
	ski (0.29347)
	liv (0.292569)
	kid (0.259471)
	clu (0.239292)
	cbe (0.239234)
	gul (0.177588)
	tbr (0.154178)
	isp (0.150376)
	lin (0.145603)
	lyg (0.133103)
	ova (0.129132)
	ret (0.128733)
	pgl (0.118483)
	ecc (0.115035)