Non-Coding RNA Search

Ss1.1-rvin033_a4.5

Sequence:


               
               GGAAATTCAGCTTTTGCAGAAGCAGTGTTTCTACTTGCACTAGCATGGCCTCTGACGTGA
CCATGATGTCGTTCTTGATGACATTGCTTCTGCTAAACTCAATAAAAACTTCCGAAAACC
CTCCACTTTTGAGCATCAGGATTTCCTCTGAGTGTGGAACCCCTGGAATGCAAGTCAGTA
AAGTTTGGAGTGTGTATTCAAGTTTATGAAATGAGATTCGATTACAGTTTGGCCGACATG
ACTTTTCTGGAAGACACAGCGTACCTACCCCTTAATCGTTCTTTTCCTTTCTCTCGCCCA
ACATGGTCTTCTAAAATGGATTCACCTCCCTCCCCCCCCAGCCAATGCAGCTCATTTTGA
TAGCTGCATTCATTTTATCACCAGCATATTGTGTTCTGAGTGAATCACTGTCTGTCCTGT
CAGATGCTTGCTTGATTTTTTGGCTTCTTATTTCTAAGTAGATAGAAAGCAATAAAAATA
CTATGAAATAAAAGAACTTGTTCACAGGTTCTGCGTTACGACAGTAACACATCTTTAATC
CGCCTAATTCTT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGAAATTCAGCTTTTGCAGAAGCAGTGTTTCTACTTGCACTAGCATGGCCTCTGACGTGA
CCATGATGTCGTTCTTGATGACATTGCTTCTGCTAAACTCAATAAAAACTTCCGAAAACC
CTCCACTTTTGAGCATCAGGATTTCCTCTGAGTGTGGAACCCCTGGAATGCAAGTCAGTA
AAGTTTGGAGTGTGTATTCAAGTTTATGAAATGAGATTCGATTACAGTTTGGCCGACATG
ACTTTTCTGGAAGACACAGCGTACCTACCCCTTAATCGTTCTTTTCCTTTCTCTCGCCCA
ACATGGTCTTCTAAAATGGATTCACCTCCCTCCCCCCCCAGCCAATGCAGCTCATTTTGA
TAGCTGCATTCATTTTATCACCAGCATATTGTGTTCTGAGTGAATCACTGTCTGTCCTGT
CAGATGCTTGCTTGATTTTTTGGCTTCTTATTTCTAAGTAGATAGAAAGCAATAAAAATA
CTATGAAATAAAAGAACTTGTTCACAGGTTCTGCGTTACGACAGTAACACATCTTTAATC
CGCCTAATTCTT

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

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

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               1-108, - strand, RNAz p=0.999104
               

               
               283-552, - strand, RNAz p=0.98972

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


               
               1-108, - strand, RNAz p=0.999104
               

               
               283-552, - strand, RNAz p=0.98972

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               15-92, + strand, RNAmicro p=0.999959
               

               
               3-144, - strand, RNAmicro p=0.998211

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


               
               15-92, + strand, RNAmicro p=0.999959
               

               
               3-144, - strand, RNAmicro p=0.998211

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               1-97, BP241082 Sugano cDNA library, liver HepG2 Homo sapiens cDNA clone 
(dbj|BP241082.1|), blast E-value=6e-40, identity=96.91% 
               

               
               1-108, DA169876 BRAMY2 Homo sapiens cDNA clone BRAMY2031803 5', mRNA 
(dbj|DA169876.1|), blast E-value=2.00386e-43, identity=96.3% 
               

               
               1-97, UI-CF-FN0-afe-m-11-0-UI.s1 UI-CF-FN0 Homo sapiens cDNA clone 
(gb|CA311752.1|), blast E-value=9.99967e-42, identity=97.94% 
               

               
               1-108, K-EST0173582 L7N800102 Homo sapiens cDNA clone L7N800102-6-B09 5', 
(gb|CB124825.1|), blast E-value=2.00386e-43, identity=96.3% 
               

               
               11-108, SlLH03c08h21f1 squirrel heart library 1 Spermophilus lateralis cDNA 
(gb|CO734335.1|), blast E-value=9.80909e-45, identity=98.98% 
               

               
               1-106, ILLUMIGEN_MCQ_53331 Katze_MNLV Macaca nemestrina cDNA clone 
(gb|DR771913.1|), blast E-value=6e-40, identity=95.28%

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


               
               1-97, BP241082 Sugano cDNA library, liver HepG2 Homo sapiens cDNA clone 
(dbj|BP241082.1|), blast E-value=6e-40, identity=96.91% 
               

               
               1-108, DA169876 BRAMY2 Homo sapiens cDNA clone BRAMY2031803 5', mRNA 
(dbj|DA169876.1|), blast E-value=2.00386e-43, identity=96.3% 
               

               
               1-97, UI-CF-FN0-afe-m-11-0-UI.s1 UI-CF-FN0 Homo sapiens cDNA clone 
(gb|CA311752.1|), blast E-value=9.99967e-42, identity=97.94% 
               

               
               1-108, K-EST0173582 L7N800102 Homo sapiens cDNA clone L7N800102-6-B09 5', 
(gb|CB124825.1|), blast E-value=2.00386e-43, identity=96.3% 
               

               
               11-108, SlLH03c08h21f1 squirrel heart library 1 Spermophilus lateralis cDNA 
(gb|CO734335.1|), blast E-value=9.80909e-45, identity=98.98% 
               

               
               1-106, ILLUMIGEN_MCQ_53331 Katze_MNLV Macaca nemestrina cDNA clone 
(gb|DR771913.1|), blast E-value=6e-40, identity=95.28%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-552, gnl|bosTau2|chr6 (20938013-20937455)
               

               
               1-552, gnl|Hg17|chr4 (23471722-23471177)
               

               
               1-552, gnl|Mm7|chr5 (50829286-50828681)

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


               
               1-552, gnl|bosTau2|chr6 (20938013-20937455)
               

               
               1-552, gnl|Hg17|chr4 (23471722-23471177)
               

               
               1-552, gnl|Mm7|chr5 (50829286-50828681)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               vin (0.332557)
               

               
               isp (0.150376)

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


               
               vin (0.332557)
               

               
               isp (0.150376)

	1-108, - strand, RNAz p=0.999104
	283-552, - strand, RNAz p=0.98972

	15-92, + strand, RNAmicro p=0.999959
	3-144, - strand, RNAmicro p=0.998211

	1-97, BP241082 Sugano cDNA library, liver HepG2 Homo sapiens cDNA clone (dbj\|BP241082.1\|), blast E-value=6e-40, identity=96.91%
	1-108, DA169876 BRAMY2 Homo sapiens cDNA clone BRAMY2031803 5', mRNA (dbj\|DA169876.1\|), blast E-value=2.00386e-43, identity=96.3%
	1-97, UI-CF-FN0-afe-m-11-0-UI.s1 UI-CF-FN0 Homo sapiens cDNA clone (gb\|CA311752.1\|), blast E-value=9.99967e-42, identity=97.94%
	1-108, K-EST0173582 L7N800102 Homo sapiens cDNA clone L7N800102-6-B09 5', (gb\|CB124825.1\|), blast E-value=2.00386e-43, identity=96.3%
	11-108, SlLH03c08h21f1 squirrel heart library 1 Spermophilus lateralis cDNA (gb\|CO734335.1\|), blast E-value=9.80909e-45, identity=98.98%
	1-106, ILLUMIGEN_MCQ_53331 Katze_MNLV Macaca nemestrina cDNA clone (gb\|DR771913.1\|), blast E-value=6e-40, identity=95.28%

	1-552, gnl\|bosTau2\|chr6 (20938013-20937455)
	1-552, gnl\|Hg17\|chr4 (23471722-23471177)
	1-552, gnl\|Mm7\|chr5 (50829286-50828681)