Non-Coding RNA Search

Ss1.1-Pig4-TMW8013K15.5

Sequence:


               
               CCACCGCCACCGCCACCGCCGCCGCCGCCGCTGCAGCAGCAGCACCTGCTCGGCTCCGCT
CCGACCTGTGAAGGACTGCGGATGAGGCCAGGAGCTAGTGTCCACCTCGGCCACACGGGG
AGCAGCGTGGGCCCTCTGGGGGCCTGCTGTGCATGTGGCTCTTTTTAACACAGTAAACTA
GATTAGACGTCAGTGTTTTAATTGCTCCCCCCTCTGCTTTTTTCTCTGTCTCCCTCTGTC
TCCTCTCAGCCAGGAGACCATCCCATGTCTCTCTTTGCTTCCTCCTTCTCCCTCCAGGGA
GAAATTCTGAAATTCTTCAGCTTCTCTCTCCGTCCCACTGCTCCTCTCCTGCTGGCAGAT
GGATTTATTCCTTTTTAAAACAGTGAACATTGGAAATGAGACTGTGGGGTGTGGTTTTTT
TCTCCCAGTTTCGTTGTTGGGTTTTCGCGCAACCTCATGTCCCCCTCCCAGGGAGCTTCT
CGATTTACCTCTTAGAAGTGGGTGGCTGGGAGGTAGAGCACTGTACTCCAGCATGCTTGG
TTTAACGATGAGATTCCTTAGCAAGGCTTTAATGCCGTTTGGGCAGGTAAGCTTCTGCAC
CTCTGTTGTGCTCAGCTCTGTTTTCTTCTTTCTCTCATGTCCTCTTTGTCGTCCCTCCCG
CCGCCCCCGCCTCCTTCCCGCTGGCCTCCTTTTCTCTTTCTTTCCCTTTCTCAGATTATC
CTTCCAGGTTTTCGTAATAAATTTATATTTTGTAAAAGGATTTTGTTGTACCAGGTTTTG
CATCCTCACTGAATCTGACTGGCTTTTGTTTTCCTCTCCAAAATCAGGTATTTGTTCTCA
ACATCTTTCCCCATCATGTCCAGTCACTGTTTTGGTTTTGGCACCATCAATATCAAATGT
ACAAACGGTTCTTGCTAACCAACACCAGGTATATCTGATGTTCAGATGAGTTCCAATAAA
AACAATTTTTTTTTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CCACCGCCACCGCCACCGCCGCCGCCGCCGCTGCAGCAGCAGCACCTGCTCGGCTCCGCT
CCGACCTGTGAAGGACTGCGGATGAGGCCAGGAGCTAGTGTCCACCTCGGCCACACGGGG
AGCAGCGTGGGCCCTCTGGGGGCCTGCTGTGCATGTGGCTCTTTTTAACACAGTAAACTA
GATTAGACGTCAGTGTTTTAATTGCTCCCCCCTCTGCTTTTTTCTCTGTCTCCCTCTGTC
TCCTCTCAGCCAGGAGACCATCCCATGTCTCTCTTTGCTTCCTCCTTCTCCCTCCAGGGA
GAAATTCTGAAATTCTTCAGCTTCTCTCTCCGTCCCACTGCTCCTCTCCTGCTGGCAGAT
GGATTTATTCCTTTTTAAAACAGTGAACATTGGAAATGAGACTGTGGGGTGTGGTTTTTT
TCTCCCAGTTTCGTTGTTGGGTTTTCGCGCAACCTCATGTCCCCCTCCCAGGGAGCTTCT
CGATTTACCTCTTAGAAGTGGGTGGCTGGGAGGTAGAGCACTGTACTCCAGCATGCTTGG
TTTAACGATGAGATTCCTTAGCAAGGCTTTAATGCCGTTTGGGCAGGTAAGCTTCTGCAC
CTCTGTTGTGCTCAGCTCTGTTTTCTTCTTTCTCTCATGTCCTCTTTGTCGTCCCTCCCG
CCGCCCCCGCCTCCTTCCCGCTGGCCTCCTTTTCTCTTTCTTTCCCTTTCTCAGATTATC
CTTCCAGGTTTTCGTAATAAATTTATATTTTGTAAAAGGATTTTGTTGTACCAGGTTTTG
CATCCTCACTGAATCTGACTGGCTTTTGTTTTCCTCTCCAAAATCAGGTATTTGTTCTCA
ACATCTTTCCCCATCATGTCCAGTCACTGTTTTGGTTTTGGCACCATCAATATCAAATGT
ACAAACGGTTCTTGCTAACCAACACCAGGTATATCTGATGTTCAGATGAGTTCCAATAAA
AACAATTTTTTTTTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

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

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

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               237-336, - strand, RNAz p=0.964583
               

               
               540-648, - strand, RNAz p=0.691866
               

               
               864-982, - strand, RNAz p=0.983235

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


               
               237-336, - strand, RNAz p=0.964583
               

               
               540-648, - strand, RNAz p=0.691866
               

               
               864-982, - strand, RNAz p=0.983235

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               123-256, - strand, RNAmicro p=0.994828

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


               
               123-256, - strand, RNAmicro p=0.994828

Similar Transcript(s): 1 entry(ies)

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Similar Transcript(s): 1 entry(ies)

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               237-336, AR065C09IBMBC09S Infected Porcine Bone Marrow cDNA library Sus 
(gb|BI304801.1|), blast E-value=0, identity=100%

Similar Transcript(s): 1 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


               
               237-336, AR065C09IBMBC09S Infected Porcine Bone Marrow cDNA library Sus 
(gb|BI304801.1|), blast E-value=0, identity=100%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               13-982, gnl|bosTau2|chr19 (12585630-12586628)
               

               
               13-982, gnl|Hg17|chr17 (27832456-27833512)
               

               
               13-982, gnl|Mm7|chr11 (80553840-80554824)

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


               
               13-982, gnl|bosTau2|chr19 (12585630-12586628)
               

               
               13-982, gnl|Hg17|chr17 (27832456-27833512)
               

               
               13-982, gnl|Mm7|chr11 (80553840-80554824)

Expressed library(ies): 17 entry(ies)

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Expressed library(ies): 17 entry(ies)

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               eye (0.341006)
               

               
               sme (0.305437)
               

               
               cag (0.302389)
               

               
               eru (0.240096)
               

               
               nms (0.213858)
               

               
               nbm (0.198649)
               

               
               fcc (0.197785)
               

               
               gul (0.177588)
               

               
               fbs (0.175346)
               

               
               mcp (0.170648)
               

               
               nje (0.16592)
               

               
               cki (0.165235)
               

               
               csp (0.161186)
               

               
               bfe (0.149858)
               

               
               ute (0.132784)
               

               
               cly (0.120642)
               

               
               eje (0.0988338)

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


               
               eye (0.341006)
               

               
               sme (0.305437)
               

               
               cag (0.302389)
               

               
               eru (0.240096)
               

               
               nms (0.213858)
               

               
               nbm (0.198649)
               

               
               fcc (0.197785)
               

               
               gul (0.177588)
               

               
               fbs (0.175346)
               

               
               mcp (0.170648)
               

               
               nje (0.16592)
               

               
               cki (0.165235)
               

               
               csp (0.161186)
               

               
               bfe (0.149858)
               

               
               ute (0.132784)
               

               
               cly (0.120642)
               

               
               eje (0.0988338)

	237-336, - strand, RNAz p=0.964583
	540-648, - strand, RNAz p=0.691866
	864-982, - strand, RNAz p=0.983235

	13-982, gnl\|bosTau2\|chr19 (12585630-12586628)
	13-982, gnl\|Hg17\|chr17 (27832456-27833512)
	13-982, gnl\|Mm7\|chr11 (80553840-80554824)

	eye (0.341006)
	sme (0.305437)
	cag (0.302389)
	eru (0.240096)
	nms (0.213858)
	nbm (0.198649)
	fcc (0.197785)
	gul (0.177588)
	fbs (0.175346)
	mcp (0.170648)
	nje (0.16592)
	cki (0.165235)
	csp (0.161186)
	bfe (0.149858)
	ute (0.132784)
	cly (0.120642)
	eje (0.0988338)