Non-Coding RNA Search

Ss1.1-Pig4-TMW8054L21.5

Sequence:


               
               ACCATCGTCCAGCCCTCCTGCACGGATGCTGTTGTTGGCAGAGCACAGCCCTCTGAGATC
ACAGCGTTTCAGGAACATTGCCACACCAGACGGAGAGCCCAGCACTCCCCCCTGGGTGAG
GGGGTGGGCGGGAGGCAGGCGCCGGGGCCGTCTCTGCCCCCAGGCCCGCCCCGAGCCGCT
TCGAGTTCTCTGTTCCGCTGCCGCGTTTCTCATGCTTCTTCTCATGGGGGGGATGGGAGC
AAAACCTCCTTTTTTTATACATTAAGTGGGGTAGACAGGGATTCTAGCCTCTTCCCTCTG
ACTTTTCCTTTTGCAAATTCTTAACTGCAGAATGGGCTGCTGTGGGGGTTGGGGTGTAGT
TTGTTTTCTCCTTTGAGTTCGCGTTGGATCCTCTTTCTGTTTGATGCCTTTCATTTCACT
GCTGAGGGATGGAGCGTGCCTTCCTCGTGTGTGTGGAGCTGGGGCTGCCGGCCTGAGCGG
AGGCATGGCTGATTCGGCTGCTCTTCCAGCCCTTCAGACAAGATCCCGTTTCAGCCAAAT
GCAGGGAAACACATTTTTAGAAAAAAGAAAAGAAAAAAAAAAAAAAAAAGCCCTGTTTTA
TTTTTCCTTAAGAGCCTTATTTCAGGCCCCACGGACAGTGGTGGGTGGGGAGGAGACGGG
AGGCGCTGGTCCCCAGCCGTCAGTTCCCGTGTGTGTGTGTAACCGTCACAGCCCAGGACC
ATGGACGTGTCTGGGGAGCCCGGCAGCGTGTTGCTCATCACCATCGTGTCTGCAAAGATG
AAAGATAAAGACCACAAACAAACAAAAACCCGAAAGAAAACCGCGGGAAAAAAAGAGTCA
CCCCCTGGCCTCTGCTTCAAACGCCTGAGAGGGGAGGCGGCTTCCTGCCCCTGGGATTCC
GCGGGGAGCTGCCGGCCTGACCTCTGGGCCCCCAGAGCCTCGCTTTTGCCCCCCGCAATG
CAGGATGGCGTGGCCGCATGGCCAAGGCGATAGGCACCGGCCCGGCCCTGTGCTGCGCCC
CACGCACCTCAGGGCCAAGCAGGGGTGCAGCTGGCCCTGCAGGTCCAGGCCAGTGGGCCT
GGCAGCACATACCTGTCCTCAGAGCAGGGGCCGGATGACGTGCCTCCCTGGTTTGCAGCT
GTTTTCCAAGCCCCTGAAAATCGCTCGTTTCCACTCCTTCAAGAGGCCCTCCTAAACCAA
TGTGGCCAGACTACTGGACTTCTCTGAATGGGACTCTGCGCAATGCTTGGGATCTCGGCT
TTCGAGGGGCAGGGAGAGGGTCTCTTCCTCGGGGCAGCACTGTCTAGGTAGGTACGAGGG
GGCGGGAGGGGTGCATAGCTGTTTTAGCCGAGGGACGTGAGGCGGGCGTCCCCGGATCTA
GCTAGGCTGTCAAGATCAACAATCCAGGGTTGGAAATGTTGAATGAGACATTCATTTTTA
CCTTGTGGATGCTCGTGCTGTAGAGTCCACTGTTGTACACAGTCTGTTTTCTATTTGTTA
AGAAAACTACAGCATCATTGCATAATTCTTGATGGTAATAAATTTGAATAATCAGATTTC
TTACAATAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ACCATCGTCCAGCCCTCCTGCACGGATGCTGTTGTTGGCAGAGCACAGCCCTCTGAGATC
ACAGCGTTTCAGGAACATTGCCACACCAGACGGAGAGCCCAGCACTCCCCCCTGGGTGAG
GGGGTGGGCGGGAGGCAGGCGCCGGGGCCGTCTCTGCCCCCAGGCCCGCCCCGAGCCGCT
TCGAGTTCTCTGTTCCGCTGCCGCGTTTCTCATGCTTCTTCTCATGGGGGGGATGGGAGC
AAAACCTCCTTTTTTTATACATTAAGTGGGGTAGACAGGGATTCTAGCCTCTTCCCTCTG
ACTTTTCCTTTTGCAAATTCTTAACTGCAGAATGGGCTGCTGTGGGGGTTGGGGTGTAGT
TTGTTTTCTCCTTTGAGTTCGCGTTGGATCCTCTTTCTGTTTGATGCCTTTCATTTCACT
GCTGAGGGATGGAGCGTGCCTTCCTCGTGTGTGTGGAGCTGGGGCTGCCGGCCTGAGCGG
AGGCATGGCTGATTCGGCTGCTCTTCCAGCCCTTCAGACAAGATCCCGTTTCAGCCAAAT
GCAGGGAAACACATTTTTAGAAAAAAGAAAAGAAAAAAAAAAAAAAAAAGCCCTGTTTTA
TTTTTCCTTAAGAGCCTTATTTCAGGCCCCACGGACAGTGGTGGGTGGGGAGGAGACGGG
AGGCGCTGGTCCCCAGCCGTCAGTTCCCGTGTGTGTGTGTAACCGTCACAGCCCAGGACC
ATGGACGTGTCTGGGGAGCCCGGCAGCGTGTTGCTCATCACCATCGTGTCTGCAAAGATG
AAAGATAAAGACCACAAACAAACAAAAACCCGAAAGAAAACCGCGGGAAAAAAAGAGTCA
CCCCCTGGCCTCTGCTTCAAACGCCTGAGAGGGGAGGCGGCTTCCTGCCCCTGGGATTCC
GCGGGGAGCTGCCGGCCTGACCTCTGGGCCCCCAGAGCCTCGCTTTTGCCCCCCGCAATG
CAGGATGGCGTGGCCGCATGGCCAAGGCGATAGGCACCGGCCCGGCCCTGTGCTGCGCCC
CACGCACCTCAGGGCCAAGCAGGGGTGCAGCTGGCCCTGCAGGTCCAGGCCAGTGGGCCT
GGCAGCACATACCTGTCCTCAGAGCAGGGGCCGGATGACGTGCCTCCCTGGTTTGCAGCT
GTTTTCCAAGCCCCTGAAAATCGCTCGTTTCCACTCCTTCAAGAGGCCCTCCTAAACCAA
TGTGGCCAGACTACTGGACTTCTCTGAATGGGACTCTGCGCAATGCTTGGGATCTCGGCT
TTCGAGGGGCAGGGAGAGGGTCTCTTCCTCGGGGCAGCACTGTCTAGGTAGGTACGAGGG
GGCGGGAGGGGTGCATAGCTGTTTTAGCCGAGGGACGTGAGGCGGGCGTCCCCGGATCTA
GCTAGGCTGTCAAGATCAACAATCCAGGGTTGGAAATGTTGAATGAGACATTCATTTTTA
CCTTGTGGATGCTCGTGCTGTAGAGTCCACTGTTGTACACAGTCTGTTTTCTATTTGTTA
AGAAAACTACAGCATCATTGCATAATTCTTGATGGTAATAAATTTGAATAATCAGATTTC
TTACAATAAAAA

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

More info

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

Help | Less info


               
               970-1110, - strand, RNAz p=0.956936
               

               
               1310-1566, - strand, RNAz p=0.976274

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


               
               970-1110, - strand, RNAz p=0.956936
               

               
               1310-1566, - strand, RNAz p=0.976274

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               1015-1081, - strand, RNAmicro p=0.992703

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


               
               1015-1081, - strand, RNAmicro p=0.992703

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               1310-1566, DB812785 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB812785.1|), blast E-value=0, identity=100% 
               

               
               1318-1566, 434014 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BI538612.1|), 
blast E-value=0, identity=94.38% 
               

               
               1318-1566, 434038 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BI538626.1|), 
blast E-value=0, identity=94.38% 
               

               
               1318-1564, 966419 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK775295.1|), 
blast E-value=0, identity=93.93% 
               

               
               1318-1566, BovGen_14115 normal cattle brain Bos taurus cDNA clone 
(gb|CO885790.1|), blast E-value=0, identity=93.98% 
               

               
               1318-1566, LB02929.CR_F18 GC_BGC-29 Bos taurus cDNA clone IMAGE 
(gb|DV922885.1|), blast E-value=0, identity=93.98%

Similar Transcript(s): 6 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


               
               1310-1566, DB812785 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB812785.1|), blast E-value=0, identity=100% 
               

               
               1318-1566, 434014 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BI538612.1|), 
blast E-value=0, identity=94.38% 
               

               
               1318-1566, 434038 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BI538626.1|), 
blast E-value=0, identity=94.38% 
               

               
               1318-1564, 966419 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK775295.1|), 
blast E-value=0, identity=93.93% 
               

               
               1318-1566, BovGen_14115 normal cattle brain Bos taurus cDNA clone 
(gb|CO885790.1|), blast E-value=0, identity=93.98% 
               

               
               1318-1566, LB02929.CR_F18 GC_BGC-29 Bos taurus cDNA clone IMAGE 
(gb|DV922885.1|), blast E-value=0, identity=93.98%

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               54-556, gnl|bosTau2|chr3 (71926527-71927030)
               

               
               54-556, gnl|Hg17|chr1 (43756873-43757411)
               

               
               54-556, gnl|Mm7|chr4 (117586134-117585636)
               


               
               593-1566, gnl|bosTau2|chr3 (71927045-71928022)
               

               
               593-1566, gnl|Hg17|chr1 (43757420-43758429)
               

               
               593-1566, gnl|Mm7|chr4 (117585621-117584656)

Aligned organism(s): 6 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


               
               54-556, gnl|bosTau2|chr3 (71926527-71927030)
               

               
               54-556, gnl|Hg17|chr1 (43756873-43757411)
               

               
               54-556, gnl|Mm7|chr4 (117586134-117585636)
               


               
               593-1566, gnl|bosTau2|chr3 (71927045-71928022)
               

               
               593-1566, gnl|Hg17|chr1 (43757420-43758429)
               

               
               593-1566, gnl|Mm7|chr4 (117585621-117584656)

Expressed library(ies): 28 entry(ies)

More info

Expressed library(ies): 28 entry(ies)

Help | Less info


               
               elu (1.15607)
               

               
               ute (0.663922)
               

               
               jej (0.494609)
               

               
               pty (0.428143)
               

               
               amn (0.417711)
               

               
               col (0.390016)
               

               
               cut (0.339847)
               

               
               cje (0.330469)
               

               
               mga (0.32041)
               

               
               hyp (0.285673)
               

               
               cst (0.280073)
               

               
               cga (0.279096)
               

               
               fce (0.271592)
               

               
               eep (0.245128)
               

               
               mas (0.210305)
               

               
               eje (0.197668)
               

               
               cmu (0.186393)
               

               
               ill (0.175593)
               

               
               rec (0.17307)
               

               
               fhi (0.169578)
               

               
               cag (0.151194)
               

               
               csk (0.140746)
               

               
               pla (0.133672)
               

               
               nmm (0.132802)
               

               
               cov (0.132153)
               

               
               kid (0.129735)
               

               
               sug (0.127291)
               

               
               bla (0.124347)

Expressed library(ies): 28 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


               
               elu (1.15607)
               

               
               ute (0.663922)
               

               
               jej (0.494609)
               

               
               pty (0.428143)
               

               
               amn (0.417711)
               

               
               col (0.390016)
               

               
               cut (0.339847)
               

               
               cje (0.330469)
               

               
               mga (0.32041)
               

               
               hyp (0.285673)
               

               
               cst (0.280073)
               

               
               cga (0.279096)
               

               
               fce (0.271592)
               

               
               eep (0.245128)
               

               
               mas (0.210305)
               

               
               eje (0.197668)
               

               
               cmu (0.186393)
               

               
               ill (0.175593)
               

               
               rec (0.17307)
               

               
               fhi (0.169578)
               

               
               cag (0.151194)
               

               
               csk (0.140746)
               

               
               pla (0.133672)
               

               
               nmm (0.132802)
               

               
               cov (0.132153)
               

               
               kid (0.129735)
               

               
               sug (0.127291)
               

               
               bla (0.124347)

	970-1110, - strand, RNAz p=0.956936
	1310-1566, - strand, RNAz p=0.976274

	1310-1566, DB812785 full-length enriched swine cDNA library, adult ovary Sus (dbj\|DB812785.1\|), blast E-value=0, identity=100%
	1318-1566, 434014 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|BI538612.1\|), blast E-value=0, identity=94.38%
	1318-1566, 434038 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|BI538626.1\|), blast E-value=0, identity=94.38%
	1318-1564, 966419 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK775295.1\|), blast E-value=0, identity=93.93%
	1318-1566, BovGen_14115 normal cattle brain Bos taurus cDNA clone (gb\|CO885790.1\|), blast E-value=0, identity=93.98%
	1318-1566, LB02929.CR_F18 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|DV922885.1\|), blast E-value=0, identity=93.98%

	54-556, gnl\|bosTau2\|chr3 (71926527-71927030)
	54-556, gnl\|Hg17\|chr1 (43756873-43757411)
	54-556, gnl\|Mm7\|chr4 (117586134-117585636)

	593-1566, gnl\|bosTau2\|chr3 (71927045-71928022)
	593-1566, gnl\|Hg17\|chr1 (43757420-43758429)
	593-1566, gnl\|Mm7\|chr4 (117585621-117584656)

	elu (1.15607)
	ute (0.663922)
	jej (0.494609)
	pty (0.428143)
	amn (0.417711)
	col (0.390016)
	cut (0.339847)
	cje (0.330469)
	mga (0.32041)
	hyp (0.285673)
	cst (0.280073)
	cga (0.279096)
	fce (0.271592)
	eep (0.245128)
	mas (0.210305)
	eje (0.197668)
	cmu (0.186393)
	ill (0.175593)
	rec (0.17307)
	fhi (0.169578)
	cag (0.151194)
	csk (0.140746)
	pla (0.133672)
	nmm (0.132802)
	cov (0.132153)
	kid (0.129735)
	sug (0.127291)
	bla (0.124347)