Non-Coding RNA Search

Ss1.1-Pig4-TMW8039F11.3

Sequence:


               
               TGGACCTGCAGGCCCAGGAGCTTCTCTTCTATGAGCCGGCCTCGGGCACGGTGCTACACA
CCCACCACGCGTCCTTCCCCGGGCCCCTCTTCCCAGTCTTTGCCGTGGCCGACCAGACCA
TTTCCATCATCCACTGACCTCTGGCCGTGGGGAGGCCAGGTCGGCCTCCCTACCGCCCTT
TCGGGCCATGTTTCTACCCAATGTCTTTTTCCCAAACATTGCCTGTGTCCAATGGGCAGC
TTTAGGAGGGCATCTGGGTACAGCCACTCCATGCTGGATATCGGTGGGGAACCTGCTGTT
CCCCAGCCTTGGTCTCCCCAGCCTACACATCTGTTCCACTGGTGGTGTCTTGTTTGCCAC
TGTATCTCTAACATCCAGCACGGTGCCTGGTGCATAATGAAAGTGCAATAAATATTTGGC
AAGCGAGTGGATGGATGGATGGATGGATGGACAGGTGACGGAGCGCTGCCTCCAGTAGAT
GCCATTCTCTGGCAGAATAGCCTATGGCTGAAGCTCTTTCATCCCCTCAATTCACTGCTC
CTTAGTCCTTTTCATGACATGGCACACAGAGAAAATATTTTTTCTAGCACACAGGAAAAC
CTGCAGGGGAGTTATTACTCCTGCCAGGCTGTGGTTGGCCACAGGACTCTGCCTGGGGGC
TGTGTCCTCTGCCAGACCCTGCCTGGCCACTCGGAACACTGAAGGGATCCTGTCCAGGTG
ACCTGCCCACAACACACCTGTCGGCAGCCCTGCCTGAGACTAGGCAGAGCTCCAGTCCCT
GCCTACCCGGGGCAACAGGGATGAACTTTTCTCCCCACTGCAGCTGATGAATGGCCCCAC
CTAGTGCCTTCTCTGACATAATGTGAAGACCTGCAGTGAGGCCTTCAAAGAAACAGCTGA
GGGACAAGAGGGCCAGCCTTGGGGAACATGGACATTATTAAAGGTTTT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TGGACCTGCAGGCCCAGGAGCTTCTCTTCTATGAGCCGGCCTCGGGCACGGTGCTACACA
CCCACCACGCGTCCTTCCCCGGGCCCCTCTTCCCAGTCTTTGCCGTGGCCGACCAGACCA
TTTCCATCATCCACTGACCTCTGGCCGTGGGGAGGCCAGGTCGGCCTCCCTACCGCCCTT
TCGGGCCATGTTTCTACCCAATGTCTTTTTCCCAAACATTGCCTGTGTCCAATGGGCAGC
TTTAGGAGGGCATCTGGGTACAGCCACTCCATGCTGGATATCGGTGGGGAACCTGCTGTT
CCCCAGCCTTGGTCTCCCCAGCCTACACATCTGTTCCACTGGTGGTGTCTTGTTTGCCAC
TGTATCTCTAACATCCAGCACGGTGCCTGGTGCATAATGAAAGTGCAATAAATATTTGGC
AAGCGAGTGGATGGATGGATGGATGGATGGACAGGTGACGGAGCGCTGCCTCCAGTAGAT
GCCATTCTCTGGCAGAATAGCCTATGGCTGAAGCTCTTTCATCCCCTCAATTCACTGCTC
CTTAGTCCTTTTCATGACATGGCACACAGAGAAAATATTTTTTCTAGCACACAGGAAAAC
CTGCAGGGGAGTTATTACTCCTGCCAGGCTGTGGTTGGCCACAGGACTCTGCCTGGGGGC
TGTGTCCTCTGCCAGACCCTGCCTGGCCACTCGGAACACTGAAGGGATCCTGTCCAGGTG
ACCTGCCCACAACACACCTGTCGGCAGCCCTGCCTGAGACTAGGCAGAGCTCCAGTCCCT
GCCTACCCGGGGCAACAGGGATGAACTTTTCTCCCCACTGCAGCTGATGAATGGCCCCAC
CTAGTGCCTTCTCTGACATAATGTGAAGACCTGCAGTGAGGCCTTCAAAGAAACAGCTGA
GGGACAAGAGGGCCAGCCTTGGGGAACATGGACATTATTAAAGGTTTT

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

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

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               80-194, - strand, RNAz p=0.606593
               

               
               571-723, - strand, RNAz p=0.999999

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


               
               80-194, - strand, RNAz p=0.606593
               

               
               571-723, - strand, RNAz p=0.999999

Similar Transcript(s): 1 entry(ies)

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Similar Transcript(s): 1 entry(ies)

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               571-723, UMC-pd12_14end-009-b04 Endometrium pregnant gilt day 12 & 14 
(gb|CO994905.1|), 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


               
               571-723, UMC-pd12_14end-009-b04 Endometrium pregnant gilt day 12 & 14 
(gb|CO994905.1|), blast E-value=0, identity=100%

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               1-451, gnl|bosTau2|chr8 (52856338-52855887)
               

               
               1-451, gnl|Hg17|chr9 (113211840-113212511)
               

               
               1-451, gnl|Mm7|chr4 (61930084-61930520)
               


               
               466-948, gnl|bosTau2|chr8 (52855821-52855348)
               

               
               466-948, gnl|Hg17|chr9 (113212587-113213049)
               

               
               466-948, gnl|Mm7|chr4 (61930564-61930982)

Aligned organism(s): 6 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


               
               1-451, gnl|bosTau2|chr8 (52856338-52855887)
               

               
               1-451, gnl|Hg17|chr9 (113211840-113212511)
               

               
               1-451, gnl|Mm7|chr4 (61930084-61930520)
               


               
               466-948, gnl|bosTau2|chr8 (52855821-52855348)
               

               
               466-948, gnl|Hg17|chr9 (113212587-113213049)
               

               
               466-948, gnl|Mm7|chr4 (61930564-61930982)

Expressed library(ies): 4 entry(ies)

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Expressed library(ies): 4 entry(ies)

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               duo (0.172801)
               

               
               nco (0.161734)
               

               
               pty (0.142714)
               

               
               cty (0.10408)

Expressed library(ies): 4 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


               
               duo (0.172801)
               

               
               nco (0.161734)
               

               
               pty (0.142714)
               

               
               cty (0.10408)

	80-194, - strand, RNAz p=0.606593
	571-723, - strand, RNAz p=0.999999

	1-451, gnl\|bosTau2\|chr8 (52856338-52855887)
	1-451, gnl\|Hg17\|chr9 (113211840-113212511)
	1-451, gnl\|Mm7\|chr4 (61930084-61930520)

	466-948, gnl\|bosTau2\|chr8 (52855821-52855348)
	466-948, gnl\|Hg17\|chr9 (113212587-113213049)
	466-948, gnl\|Mm7\|chr4 (61930564-61930982)