Non-Coding RNA Search

Ss1.1-rski0117_n20.5

Sequence:


               
               TTAAGTAACTGTTTTCAAGAAAACTAAATATTAGCTGTCATGATTTTACTTGATTATGCT
TATAATATAAACAGATTTTGAACACAAGTAGCTGTGTTCCCACGCACTAATGTTGATAAT
GTATGCTGGTCTTTCATCTTGTTTTCCAAGTAGAGACAAGATTACAAAATGGCAGAGAAC
AGATACCTCCTGATGCTAAGTTCTGAAGATACAGGGAGAAGAAATTGGTGGCATCATGGC
ACCAGATTGAAGGGAACGAACAAACCTGGAAACTTGAGAGTAAAAGAGGCAGAACGAGAA
GTTCCAAGGGACCTTCAAGTACCTGGGGCAGGAGGAAGCAGGCAGGAGGAATGGAGGAAA
GTCTTACCAAATGCTGGGAGCTGAGCTCTCAGCATCTCTGACCCCAGAGACAGAGCCCAC
TGGCCACCTAGCAGCAGCACTGCTTCTTGCAGCAGTGCTTCTGCTGGCAACAGCACTTCT
GCTGGCAACAGCCCTTCCCACAGCCACAACCACACGAGTTGCACCTGCAGGTGCGGCGGT
AGCAGCAGACCACGGGGGTGCTGCAGCAGCCCCCACAGCAGCCACAGCAGCAGGGGCAGC
AGCCCGAGCAGCAGCCCACCCGGTAGCATCTGCAGCTGGTACAGCTGTTGCAGCTGCCAC
AGCCACCGCCACAGCCACCACCGCAGCCACCGCAGCCACTGCTGCAGCCACCGCAACCAC
CGCAGCCTCCGCAGCCACCACAACTTCCCCAGCCACAGCAGCCCATGGTGTCGTTAGAGA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTAAGTAACTGTTTTCAAGAAAACTAAATATTAGCTGTCATGATTTTACTTGATTATGCT
TATAATATAAACAGATTTTGAACACAAGTAGCTGTGTTCCCACGCACTAATGTTGATAAT
GTATGCTGGTCTTTCATCTTGTTTTCCAAGTAGAGACAAGATTACAAAATGGCAGAGAAC
AGATACCTCCTGATGCTAAGTTCTGAAGATACAGGGAGAAGAAATTGGTGGCATCATGGC
ACCAGATTGAAGGGAACGAACAAACCTGGAAACTTGAGAGTAAAAGAGGCAGAACGAGAA
GTTCCAAGGGACCTTCAAGTACCTGGGGCAGGAGGAAGCAGGCAGGAGGAATGGAGGAAA
GTCTTACCAAATGCTGGGAGCTGAGCTCTCAGCATCTCTGACCCCAGAGACAGAGCCCAC
TGGCCACCTAGCAGCAGCACTGCTTCTTGCAGCAGTGCTTCTGCTGGCAACAGCACTTCT
GCTGGCAACAGCCCTTCCCACAGCCACAACCACACGAGTTGCACCTGCAGGTGCGGCGGT
AGCAGCAGACCACGGGGGTGCTGCAGCAGCCCCCACAGCAGCCACAGCAGCAGGGGCAGC
AGCCCGAGCAGCAGCCCACCCGGTAGCATCTGCAGCTGGTACAGCTGTTGCAGCTGCCAC
AGCCACCGCCACAGCCACCACCGCAGCCACCGCAGCCACTGCTGCAGCCACCGCAACCAC
CGCAGCCTCCGCAGCCACCACAACTTCCCCAGCCACAGCAGCCCATGGTGTCGTTAGAGA

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               Q9D230_MOUSE

Coded protein: 1 entry(ies)

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Protein identifier


               
               Q9D230_MOUSE

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

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

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               419-523, - strand, RNAz p=0.995863
               

               
               564-705, - strand, RNAz p=0.999936

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


               
               419-523, - strand, RNAz p=0.995863
               

               
               564-705, - strand, RNAz p=0.999936

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               639-796, - strand, RNAmicro p=0.999995
               

               
               455-517, - strand, RNAmicro p=0.990137

Predicted microRNA(s): 2 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


               
               639-796, - strand, RNAmicro p=0.999995
               

               
               455-517, - strand, RNAmicro p=0.990137

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               616-705, DB803954 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB803954.1|), blast E-value=1e-26, identity=93.33% 
               

               
               616-705, DB806008 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB806008.1|), blast E-value=3e-24, identity=92.22% 
               

               
               642-693, CES001611 Bos taurus skin cDNA library Bos taurus cDNA clone 
(gb|CF765591.1|), blast E-value=4e-17, identity=98.08% 
               

               
               642-691, CES003629 Bos taurus skin cDNA library Bos taurus cDNA clone 
(gb|CF766513.1|), blast E-value=6e-16, identity=98% 
               

               
               642-693, LB02967.CR_C16 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE364493.1|), 
blast E-value=0.00000000000001, identity=96.15% 
               

               
               642-691, LB029109.CR_E07 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE369023.1|), 
blast E-value=6e-16, identity=98%

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


               
               616-705, DB803954 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB803954.1|), blast E-value=1e-26, identity=93.33% 
               

               
               616-705, DB806008 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB806008.1|), blast E-value=3e-24, identity=92.22% 
               

               
               642-693, CES001611 Bos taurus skin cDNA library Bos taurus cDNA clone 
(gb|CF765591.1|), blast E-value=4e-17, identity=98.08% 
               

               
               642-691, CES003629 Bos taurus skin cDNA library Bos taurus cDNA clone 
(gb|CF766513.1|), blast E-value=6e-16, identity=98% 
               

               
               642-693, LB02967.CR_C16 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE364493.1|), 
blast E-value=0.00000000000001, identity=96.15% 
               

               
               642-691, LB029109.CR_E07 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE369023.1|), 
blast E-value=6e-16, identity=98%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               419-780, gnl|bosTau2|chr2 (69331163-69331536)
               

               
               419-780, gnl|Hg17|chr2 (228304745-228305075)
               

               
               419-780, gnl|Mm7|chr1 (83164263-83164646)

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


               
               419-780, gnl|bosTau2|chr2 (69331163-69331536)
               

               
               419-780, gnl|Hg17|chr2 (228304745-228305075)
               

               
               419-780, gnl|Mm7|chr1 (83164263-83164646)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               nep (0.183925)
               

               
               ski (0.146735)

Expressed library(ies): 2 entry(ies)

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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


               
               nep (0.183925)
               

               
               ski (0.146735)

	419-523, - strand, RNAz p=0.995863
	564-705, - strand, RNAz p=0.999936

	639-796, - strand, RNAmicro p=0.999995
	455-517, - strand, RNAmicro p=0.990137

	616-705, DB803954 full-length enriched swine cDNA library, adult skin Sus (dbj\|DB803954.1\|), blast E-value=1e-26, identity=93.33%
	616-705, DB806008 full-length enriched swine cDNA library, adult skin Sus (dbj\|DB806008.1\|), blast E-value=3e-24, identity=92.22%
	642-693, CES001611 Bos taurus skin cDNA library Bos taurus cDNA clone (gb\|CF765591.1\|), blast E-value=4e-17, identity=98.08%
	642-691, CES003629 Bos taurus skin cDNA library Bos taurus cDNA clone (gb\|CF766513.1\|), blast E-value=6e-16, identity=98%
	642-693, LB02967.CR_C16 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE364493.1\|), blast E-value=0.00000000000001, identity=96.15%
	642-691, LB029109.CR_E07 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE369023.1\|), blast E-value=6e-16, identity=98%

	419-780, gnl\|bosTau2\|chr2 (69331163-69331536)
	419-780, gnl\|Hg17\|chr2 (228304745-228305075)
	419-780, gnl\|Mm7\|chr1 (83164263-83164646)