Non-Coding RNA Search

Ss1.1-Mixn-0032e24.5

Sequence:


               
               GAGGGGGAGGCAGCCTGCACCGTGGACAGCCCCAGTTTAGGCATAGGCTGGATGGAAATG
CAGAGGGCTGTGATTCATGGCCTGGAGGAGATCCTGGAGGAGGTTGCCGTCGTTCCAAGA
TTGGGCCCCCTTGGGGCAGGCTGCTTTCCGCCCTACCTCCCCCTCACACTCACACCCAGC
TGCTGTCATTCCTGCTCACTGAACTTTTCTTTCTTATCCTGATTCCTGGAGGCTTCAAAG
CCAAAATTATCATGAAAGGGAAGGGTGAATCCTGAAGAGGTCCCCTGCCCACGTGGAAAA
CCCCATACTGTAAGGATTTGAAAGCAGCCTTGGGGAGAATCTGGAGCAGTGAGGGAGAGA
GGGCAGAGTGAGCCTCCGTAACCCTGGATGAGGGTCTAGCACAGGCTGTATCTGCAAAAG
GTCCTAATAAGGAAGGCTGGAGCCAGGCAGAGCCCTTGGGAAGGGGTCGGGGCGGGGGTG
AGGGGGGCACCTGCCTGTTGATGCATCTGCACACGGGAACTCATGGCTGTGGCTTTGAGC
AGAACGGGAGCTAGAAGGTGGGAATGAGTGAAAAGAGAATGCTCATTAGCAGCATGAGAA
ATACAGGGGAAGAATCCCATCTTCCTGGGGTTCTCAGAGGACAGCAGGACCATTTTCAGG
GTAAGGAAGGACAATGTGAGAAATTCATGATCTAAAGAAGAGAGAGGTAAGCTTCACTCT
GTGCCTCTGCAGGGATCTGAATGGTGCTCCTAGGGGAGCCCATTTCTCAAAGCCCAGAAA
ATTAAGGTCCCAGAAGGGGGCAGCACTAGGCTGCTGTAAGTTAGGAGGTTTAGCAGATGG
GGGGAAAAAGAGCAAGGTGCTGTGGGCCAGGCCACCAAGCTGAGAGCTGGAGGGGAGGGG
AGGAGAACACAGAATTCCTGTGTGTAGAGCAGCCCAGCCTTGGCTCACTCCTGGCAGTTT
CTTCTCAAGGTCCTGCCCTAGAGCTAGTGTCATAAAGCTGCAGAACTTGCCAAGACCTTG
GCATTGTGGGTTCCTCTTCTGAGTCTTTGGGGGTGAGAGGGGTGCTGTTTCTAGTCCAAA
GGCCTGATTTCTGACCAGGTTCTCCTTTGGACACTTCAGTCCCCCTGTTCCTCCCCAGTA
AAGGCTACCTGTCAGTAGCAAGGACAGCCCCCCACCCCCACCCCCGCCAAAGAGGAGGGC
CGAAGGCTCCCTTCTTCTCCCCCACCTCCTCTGCCTTTTCGTCCCTGCTCTGCATTTTAG
AATTGCAGCTAATTGTTTTAAGGGGTGGAGGGAGGGAGCCTGGGGACACATCTTTTTTAC
AATACAAAGCTTTGCTCTTTTTTTTTCTTTCCCTCTTCTTGGTTCCCTTCCCTCTTCTGA
AAGGTTAGAAACACGTCAGCTGGAGGGAGGATGGGGATTGTGGGACTAGGTCCCTTGGTG
CTGATGGGCTGAAGGGACCTGAGTTGTGGGCAGATAACAGTTTCCTGTGGGCTCTGGGGA
GCCTCTCATGTTGCTGTGTCCTGGTGAGCAGCCCGACCAATAAACCCGCTTTTCTAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAGGGGGAGGCAGCCTGCACCGTGGACAGCCCCAGTTTAGGCATAGGCTGGATGGAAATG
CAGAGGGCTGTGATTCATGGCCTGGAGGAGATCCTGGAGGAGGTTGCCGTCGTTCCAAGA
TTGGGCCCCCTTGGGGCAGGCTGCTTTCCGCCCTACCTCCCCCTCACACTCACACCCAGC
TGCTGTCATTCCTGCTCACTGAACTTTTCTTTCTTATCCTGATTCCTGGAGGCTTCAAAG
CCAAAATTATCATGAAAGGGAAGGGTGAATCCTGAAGAGGTCCCCTGCCCACGTGGAAAA
CCCCATACTGTAAGGATTTGAAAGCAGCCTTGGGGAGAATCTGGAGCAGTGAGGGAGAGA
GGGCAGAGTGAGCCTCCGTAACCCTGGATGAGGGTCTAGCACAGGCTGTATCTGCAAAAG
GTCCTAATAAGGAAGGCTGGAGCCAGGCAGAGCCCTTGGGAAGGGGTCGGGGCGGGGGTG
AGGGGGGCACCTGCCTGTTGATGCATCTGCACACGGGAACTCATGGCTGTGGCTTTGAGC
AGAACGGGAGCTAGAAGGTGGGAATGAGTGAAAAGAGAATGCTCATTAGCAGCATGAGAA
ATACAGGGGAAGAATCCCATCTTCCTGGGGTTCTCAGAGGACAGCAGGACCATTTTCAGG
GTAAGGAAGGACAATGTGAGAAATTCATGATCTAAAGAAGAGAGAGGTAAGCTTCACTCT
GTGCCTCTGCAGGGATCTGAATGGTGCTCCTAGGGGAGCCCATTTCTCAAAGCCCAGAAA
ATTAAGGTCCCAGAAGGGGGCAGCACTAGGCTGCTGTAAGTTAGGAGGTTTAGCAGATGG
GGGGAAAAAGAGCAAGGTGCTGTGGGCCAGGCCACCAAGCTGAGAGCTGGAGGGGAGGGG
AGGAGAACACAGAATTCCTGTGTGTAGAGCAGCCCAGCCTTGGCTCACTCCTGGCAGTTT
CTTCTCAAGGTCCTGCCCTAGAGCTAGTGTCATAAAGCTGCAGAACTTGCCAAGACCTTG
GCATTGTGGGTTCCTCTTCTGAGTCTTTGGGGGTGAGAGGGGTGCTGTTTCTAGTCCAAA
GGCCTGATTTCTGACCAGGTTCTCCTTTGGACACTTCAGTCCCCCTGTTCCTCCCCAGTA
AAGGCTACCTGTCAGTAGCAAGGACAGCCCCCCACCCCCACCCCCGCCAAAGAGGAGGGC
CGAAGGCTCCCTTCTTCTCCCCCACCTCCTCTGCCTTTTCGTCCCTGCTCTGCATTTTAG
AATTGCAGCTAATTGTTTTAAGGGGTGGAGGGAGGGAGCCTGGGGACACATCTTTTTTAC
AATACAAAGCTTTGCTCTTTTTTTTTCTTTCCCTCTTCTTGGTTCCCTTCCCTCTTCTGA
AAGGTTAGAAACACGTCAGCTGGAGGGAGGATGGGGATTGTGGGACTAGGTCCCTTGGTG
CTGATGGGCTGAAGGGACCTGAGTTGTGGGCAGATAACAGTTTCCTGTGGGCTCTGGGGA
GCCTCTCATGTTGCTGTGTCCTGGTGAGCAGCCCGACCAATAAACCCGCTTTTCTAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Predicted RNA structure(s): 4 entry(ies)

More info

Predicted RNA structure(s): 4 entry(ies)

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               371-486, - strand, RNAz p=0.892641
               

               
               707-839, - strand, RNAz p=0.97133
               

               
               1143-1257, - strand, RNAz p=0.914963
               

               
               1406-1524, - strand, RNAz p=0.983724

Predicted RNA structure(s): 4 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


               
               371-486, - strand, RNAz p=0.892641
               

               
               707-839, - strand, RNAz p=0.97133
               

               
               1143-1257, - strand, RNAz p=0.914963
               

               
               1406-1524, - strand, RNAz p=0.983724

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               1102-1210, - strand, RNAmicro p=0.979257

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


               
               1102-1210, - strand, RNAmicro p=0.979257

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               1406-1524, DB800230 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB800230.1|), blast E-value=0, identity=99.16% 
               

               
               1406-1524, CH3#027_C12T3 Canine heart normalized cDNA Library in pBluescript 
(gb|BU749511.1|), blast E-value=2.8026e-45, identity=95.8% 
               

               
               1406-1524, CT020003B10B02 Equine Articular Cartilage cDNA Library Equus 
(gb|CX592891.1|), blast E-value=2.8026e-45, identity=95.8% 
               

               
               1406-1524, CT02038B1B09 Equine Articular Cartilage cDNA Library Equus caballus 
(gb|CX604504.1|), blast E-value=2.8026e-45, identity=95.8% 
               

               
               1406-1524, PADT0811006_D08R porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB413678.1|), blast E-value=0, identity=100% 
               

               
               1406-1524, PADT0811008_G08F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB414182.1|), blast E-value=0, identity=98.32%

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


               
               1406-1524, DB800230 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB800230.1|), blast E-value=0, identity=99.16% 
               

               
               1406-1524, CH3#027_C12T3 Canine heart normalized cDNA Library in pBluescript 
(gb|BU749511.1|), blast E-value=2.8026e-45, identity=95.8% 
               

               
               1406-1524, CT020003B10B02 Equine Articular Cartilage cDNA Library Equus 
(gb|CX592891.1|), blast E-value=2.8026e-45, identity=95.8% 
               

               
               1406-1524, CT02038B1B09 Equine Articular Cartilage cDNA Library Equus caballus 
(gb|CX604504.1|), blast E-value=2.8026e-45, identity=95.8% 
               

               
               1406-1524, PADT0811006_D08R porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB413678.1|), blast E-value=0, identity=100% 
               

               
               1406-1524, PADT0811008_G08F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB414182.1|), blast E-value=0, identity=98.32%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               336-1559, gnl|bosTau2|chr19 (36589867-36591069)
               

               
               336-1559, gnl|Hg17|chr17 (37809713-37807996)
               

               
               336-1559, gnl|Mm7|chr11 (101067051-101065775)

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


               
               336-1559, gnl|bosTau2|chr19 (36589867-36591069)
               

               
               336-1559, gnl|Hg17|chr17 (37809713-37807996)
               

               
               336-1559, gnl|Mm7|chr11 (101067051-101065775)

Expressed library(ies): 20 entry(ies)

More info

Expressed library(ies): 20 entry(ies)

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               nms (0.855432)
               

               
               cov (0.660764)
               

               
               cga (0.558191)
               

               
               eep (0.490256)
               

               
               mas (0.42061)
               

               
               amn (0.417711)
               

               
               eje (0.395335)
               

               
               ese (0.379507)
               

               
               nep (0.36785)
               

               
               eru (0.360144)
               

               
               med (0.348756)
               

               
               mcp (0.341297)
               

               
               pla (0.267344)
               

               
               nmm (0.265604)
               

               
               cly (0.241284)
               

               
               jca (0.22792)
               

               
               fcc (0.197785)
               

               
               fty (0.17584)
               

               
               ton (0.1755)
               

               
               hlv (0.139256)

Expressed library(ies): 20 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


               
               nms (0.855432)
               

               
               cov (0.660764)
               

               
               cga (0.558191)
               

               
               eep (0.490256)
               

               
               mas (0.42061)
               

               
               amn (0.417711)
               

               
               eje (0.395335)
               

               
               ese (0.379507)
               

               
               nep (0.36785)
               

               
               eru (0.360144)
               

               
               med (0.348756)
               

               
               mcp (0.341297)
               

               
               pla (0.267344)
               

               
               nmm (0.265604)
               

               
               cly (0.241284)
               

               
               jca (0.22792)
               

               
               fcc (0.197785)
               

               
               fty (0.17584)
               

               
               ton (0.1755)
               

               
               hlv (0.139256)

	371-486, - strand, RNAz p=0.892641
	707-839, - strand, RNAz p=0.97133
	1143-1257, - strand, RNAz p=0.914963
	1406-1524, - strand, RNAz p=0.983724

	1406-1524, DB800230 full-length enriched swine cDNA library, adult skin Sus (dbj\|DB800230.1\|), blast E-value=0, identity=99.16%
	1406-1524, CH3#027_C12T3 Canine heart normalized cDNA Library in pBluescript (gb\|BU749511.1\|), blast E-value=2.8026e-45, identity=95.8%
	1406-1524, CT020003B10B02 Equine Articular Cartilage cDNA Library Equus (gb\|CX592891.1\|), blast E-value=2.8026e-45, identity=95.8%
	1406-1524, CT02038B1B09 Equine Articular Cartilage cDNA Library Equus caballus (gb\|CX604504.1\|), blast E-value=2.8026e-45, identity=95.8%
	1406-1524, PADT0811006_D08R porcine adipose tissue cDNA library (PADT) Sus (gb\|EB413678.1\|), blast E-value=0, identity=100%
	1406-1524, PADT0811008_G08F porcine adipose tissue cDNA library (PADT) Sus (gb\|EB414182.1\|), blast E-value=0, identity=98.32%

	336-1559, gnl\|bosTau2\|chr19 (36589867-36591069)
	336-1559, gnl\|Hg17\|chr17 (37809713-37807996)
	336-1559, gnl\|Mm7\|chr11 (101067051-101065775)

	nms (0.855432)
	cov (0.660764)
	cga (0.558191)
	eep (0.490256)
	mas (0.42061)
	amn (0.417711)
	eje (0.395335)
	ese (0.379507)
	nep (0.36785)
	eru (0.360144)
	med (0.348756)
	mcp (0.341297)
	pla (0.267344)
	nmm (0.265604)
	cly (0.241284)
	jca (0.22792)
	fcc (0.197785)
	fty (0.17584)
	ton (0.1755)
	hlv (0.139256)