Non-Coding RNA Search

Ss1.1-Pig4-TMW8023J16.3.5

Sequence:


               
               TTGAGGCCCCTGCAGTTACCGACCTGCTCCGGCCGCTGGCCCAGGAGGCCCAGGACTCAC
CACCAAATCCCGCAGTTCCTCAGTCTGGCTCTGACCTGGGGCCCTAGGGCAGGAGGTGAG
CTTGGTGGCTTGGGGCCGGAGGGGAGAGGGGAGCGGGGCCTTCCTCCAGGTCAGCTGACT
TCTCTGGCCTCCGCCTGAGCCTCTATTTGCCTCTCCGGCCCAGTGGGCAGGGGCTGTCGT
GCAGCCTGCCCTGGAGGCATCGCGGTAAAGGGCTTGCGGCCGAGAATGAGCCAGGGTTAA
GCATGCGGGGCCCGCCAGCTGAGGCGTCCGTCCCCAGGCATCCAGGGAGATCTGCGTGCA
AGGCTTCCCTCCCACCTCCTCGCCTTTTGGCCTTTTGTTTTGGAGCCACGGGTGTGGCTT
TTGGCCTTAGCTGGCAGTACCATGGATGCACGCCCCAGGCACACCGAGTCCACCCCCGGA
GACGGTCCAGAGCTGCCAGTCGGAGGCCGCTCTTCTTCCTGGCAGGGTGCTGGACACTGG
CCATTTTTGCCCAAGGTTGCTGGCAGGGGGCAGTTCTGTCCCCTCCTCTGACCGGATCTC
TAGCTGCAGCACCCTGGGAGCCCTGAGCAGCCTGTGGGCCTCGCTCCTCAGCCCCATGTT
GCACCTGAGGCCCACCCCCATCAGCTGCTGCTCTCTGGGGCTGCCTGATCAGCCGGGAGC
CAGGCTCTCTGTCCCTCTGCTGACCCTTGCTCTCCAGCCCAGGAGCAGGGACCAGCCTTG
GGCAGCCCATCTGCAGTGGCCCTGGTCTCTTTCTCACCGTGTCCGCTGCTCACTCCGTGT
TGATGGTACTTAGAGAACGCCGCGAGTTTGTAGTATTTCACCAGACAATGTTTAGAGTCG
TGTCGAAAGGCAAACCTGTGTGTCCTCTTTCCCTGAAACGCTTTTCATTTTGACAGCCAA
CTGCCTAGATGACAGATGCACCTGGGCTTTCGGGGACATTGTGTCTTCTCTAGGGGGTTG
GGGGATGGGAAGAGGCAGAAAAAGCCCCACTGCTCACCTAGAGGAAAGCCACCTGATTCC
CAGCGGTTTCAGTGTCTAAGGGATGGAAGGGAAGGCGGGCACGCCCCCTGGTGGCGATGA
GCCGTGACGGCATGTGGGGGCCCTGACCTGCCACATAGGTGATTTGAGAGGGGAGGCTGC
GGATGGGGAGGTGAAGAGGGGGCTGTGATCTCACCCAGACCCTGGGCTTCCTGCCCCACC
TTTTGGCAGCATGTCTCCCAGACGCCTCTCTTCCTGATCAACCCCGGGGGATGGCAAGTG
AATTAGCATCAAAGGCGCTGTGATAAGAAGCCTCGCCCCACCCTTTTTTAATATCTGCGG
AATAAACGCAATGGTTGATTTTTGAACGAATAAAAGGCTTTTGTTGAATAAACAGCTCGT
CCCATCTTCTGTCTTGGCATCTAGGCATTGCAGGCTTTGTCTCCCCCAGATCGGGACAAA
CGCAGAATCCCCAGTAGGTGGTACATTTCTGTTTTCGTGCGTCCTTGTCACGGGCTCCCA
GTCTGACTCAGTGACCGGCGCTCTCCAGGAATCTGGGCAAGTCGCTTC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTGAGGCCCCTGCAGTTACCGACCTGCTCCGGCCGCTGGCCCAGGAGGCCCAGGACTCAC
CACCAAATCCCGCAGTTCCTCAGTCTGGCTCTGACCTGGGGCCCTAGGGCAGGAGGTGAG
CTTGGTGGCTTGGGGCCGGAGGGGAGAGGGGAGCGGGGCCTTCCTCCAGGTCAGCTGACT
TCTCTGGCCTCCGCCTGAGCCTCTATTTGCCTCTCCGGCCCAGTGGGCAGGGGCTGTCGT
GCAGCCTGCCCTGGAGGCATCGCGGTAAAGGGCTTGCGGCCGAGAATGAGCCAGGGTTAA
GCATGCGGGGCCCGCCAGCTGAGGCGTCCGTCCCCAGGCATCCAGGGAGATCTGCGTGCA
AGGCTTCCCTCCCACCTCCTCGCCTTTTGGCCTTTTGTTTTGGAGCCACGGGTGTGGCTT
TTGGCCTTAGCTGGCAGTACCATGGATGCACGCCCCAGGCACACCGAGTCCACCCCCGGA
GACGGTCCAGAGCTGCCAGTCGGAGGCCGCTCTTCTTCCTGGCAGGGTGCTGGACACTGG
CCATTTTTGCCCAAGGTTGCTGGCAGGGGGCAGTTCTGTCCCCTCCTCTGACCGGATCTC
TAGCTGCAGCACCCTGGGAGCCCTGAGCAGCCTGTGGGCCTCGCTCCTCAGCCCCATGTT
GCACCTGAGGCCCACCCCCATCAGCTGCTGCTCTCTGGGGCTGCCTGATCAGCCGGGAGC
CAGGCTCTCTGTCCCTCTGCTGACCCTTGCTCTCCAGCCCAGGAGCAGGGACCAGCCTTG
GGCAGCCCATCTGCAGTGGCCCTGGTCTCTTTCTCACCGTGTCCGCTGCTCACTCCGTGT
TGATGGTACTTAGAGAACGCCGCGAGTTTGTAGTATTTCACCAGACAATGTTTAGAGTCG
TGTCGAAAGGCAAACCTGTGTGTCCTCTTTCCCTGAAACGCTTTTCATTTTGACAGCCAA
CTGCCTAGATGACAGATGCACCTGGGCTTTCGGGGACATTGTGTCTTCTCTAGGGGGTTG
GGGGATGGGAAGAGGCAGAAAAAGCCCCACTGCTCACCTAGAGGAAAGCCACCTGATTCC
CAGCGGTTTCAGTGTCTAAGGGATGGAAGGGAAGGCGGGCACGCCCCCTGGTGGCGATGA
GCCGTGACGGCATGTGGGGGCCCTGACCTGCCACATAGGTGATTTGAGAGGGGAGGCTGC
GGATGGGGAGGTGAAGAGGGGGCTGTGATCTCACCCAGACCCTGGGCTTCCTGCCCCACC
TTTTGGCAGCATGTCTCCCAGACGCCTCTCTTCCTGATCAACCCCGGGGGATGGCAAGTG
AATTAGCATCAAAGGCGCTGTGATAAGAAGCCTCGCCCCACCCTTTTTTAATATCTGCGG
AATAAACGCAATGGTTGATTTTTGAACGAATAAAAGGCTTTTGTTGAATAAACAGCTCGT
CCCATCTTCTGTCTTGGCATCTAGGCATTGCAGGCTTTGTCTCCCCCAGATCGGGACAAA
CGCAGAATCCCCAGTAGGTGGTACATTTCTGTTTTCGTGCGTCCTTGTCACGGGCTCCCA
GTCTGACTCAGTGACCGGCGCTCTCCAGGAATCTGGGCAAGTCGCTTC

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

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

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               348-514, - strand, RNAz p=0.99026
               

               
               680-830, + strand, RNAz p=0.999881

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


               
               348-514, - strand, RNAz p=0.99026
               

               
               680-830, + strand, RNAz p=0.999881

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               601-723, + strand, RNAmicro p=0.998277

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


               
               601-723, + strand, RNAmicro p=0.998277

Similar Transcript(s): 1 entry(ies)

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Similar Transcript(s): 1 entry(ies)

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               680-829, 965809 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK778644.1|), 
blast E-value=0, identity=97.33%

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


               
               680-829, 965809 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK778644.1|), 
blast E-value=0, identity=97.33%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of NM_014286, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of NM_014286, +

Aligned organism(s): 4 entry(ies)

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Aligned organism(s): 4 entry(ies)

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               195-514, gnl|bosTau2|chr11 (80768090-80768400)
               

               
               195-514, gnl|Hg17|chr9 (130077222-130077520)
               


               
               527-1118, gnl|bosTau2|chr11 (80768379-80768975)
               

               
               527-1118, gnl|Hg17|chr9 (130077499-130078226)

Aligned organism(s): 4 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


               
               195-514, gnl|bosTau2|chr11 (80768090-80768400)
               

               
               195-514, gnl|Hg17|chr9 (130077222-130077520)
               


               
               527-1118, gnl|bosTau2|chr11 (80768379-80768975)
               

               
               527-1118, gnl|Hg17|chr9 (130077499-130078226)

Expressed library(ies): 15 entry(ies)

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Expressed library(ies): 15 entry(ies)

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               hyp (0.714184)
               

               
               ece (0.45861)
               

               
               fcc (0.39557)
               

               
               ebs (0.354904)
               

               
               cga (0.279096)
               

               
               eye (0.170503)
               

               
               cut (0.169924)
               

               
               cki (0.165235)
               

               
               cov (0.132153)
               

               
               sug (0.127291)
               

               
               cly (0.120642)
               

               
               med (0.116252)
               

               
               ecc (0.115035)
               

               
               jca (0.11396)
               

               
               cty (0.10408)

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


               
               hyp (0.714184)
               

               
               ece (0.45861)
               

               
               fcc (0.39557)
               

               
               ebs (0.354904)
               

               
               cga (0.279096)
               

               
               eye (0.170503)
               

               
               cut (0.169924)
               

               
               cki (0.165235)
               

               
               cov (0.132153)
               

               
               sug (0.127291)
               

               
               cly (0.120642)
               

               
               med (0.116252)
               

               
               ecc (0.115035)
               

               
               jca (0.11396)
               

               
               cty (0.10408)

	348-514, - strand, RNAz p=0.99026
	680-830, + strand, RNAz p=0.999881

	195-514, gnl\|bosTau2\|chr11 (80768090-80768400)
	195-514, gnl\|Hg17\|chr9 (130077222-130077520)

	527-1118, gnl\|bosTau2\|chr11 (80768379-80768975)
	527-1118, gnl\|Hg17\|chr9 (130077499-130078226)

	hyp (0.714184)
	ece (0.45861)
	fcc (0.39557)
	ebs (0.354904)
	cga (0.279096)
	eye (0.170503)
	cut (0.169924)
	cki (0.165235)
	cov (0.132153)
	sug (0.127291)
	cly (0.120642)
	med (0.116252)
	ecc (0.115035)
	jca (0.11396)
	cty (0.10408)