Non-Coding RNA Search

Ss1.1-rplac_0203.5

Sequence:


               
               AGTAGAAGTCATTCTGAAACTAACTTAAGTCACTGACCAATAAAGGGGGCTAAAGTAATC
CCAGTCATCTGTTCTTCAAACCCAAATAGGAGAGAATTCAGTTTTTTTATAATTAAAAAT
GGCATCTTTCTTGGACCAGGCAGTATTGTCTGGATGCTAACTCCACATCTCCTCAAACCT
CCAAAATAGTTTCTATAGGACTGAATTTACCTCTTACAGGTGAGTGAAGTCCTTCTAGGA
GATAGGAGTTCAAAATCTTGCCCCTTTTGCTGTTTTGAAAAACAAAACAACACACTGTTG
CCCATCATAATAAAGAGTATTTGTTAGCTAATAGATGGTTGTACTGATGGCTTGTTTTTC
ATTTTTTTTTGTGCTTTTTGGTCCATCTATTAATAAAAATGAACCCCGTTACAGAGTCAC
CATCATGTCTCTTCTCACCACCCTCTGAATCTGCATTAGCCAGTCAACTAGCCCTTTCAG
CGTCATGTGACCAGCGCGCCCCATTCAGCTTGGCTGGTGTCGTTTCACATGACCCAGGCA
TGGCCAGTCGTCAGGTTGCACCGCCCTTTGGTTCCCGAGCATGCTGTTTTCTCTCAGCCT
TCTCTCCAACCTTAACCAAATCGGCAGCAGCCACCTCGACCGCCCACACATTCCTGGCCA
ATCAGCTCAGCTGTTTATTTACCAAATGTCTTCACAACAACTACAGCAGCAGCCTTCGGC
TAACAAAAAAGC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AGTAGAAGTCATTCTGAAACTAACTTAAGTCACTGACCAATAAAGGGGGCTAAAGTAATC
CCAGTCATCTGTTCTTCAAACCCAAATAGGAGAGAATTCAGTTTTTTTATAATTAAAAAT
GGCATCTTTCTTGGACCAGGCAGTATTGTCTGGATGCTAACTCCACATCTCCTCAAACCT
CCAAAATAGTTTCTATAGGACTGAATTTACCTCTTACAGGTGAGTGAAGTCCTTCTAGGA
GATAGGAGTTCAAAATCTTGCCCCTTTTGCTGTTTTGAAAAACAAAACAACACACTGTTG
CCCATCATAATAAAGAGTATTTGTTAGCTAATAGATGGTTGTACTGATGGCTTGTTTTTC
ATTTTTTTTTGTGCTTTTTGGTCCATCTATTAATAAAAATGAACCCCGTTACAGAGTCAC
CATCATGTCTCTTCTCACCACCCTCTGAATCTGCATTAGCCAGTCAACTAGCCCTTTCAG
CGTCATGTGACCAGCGCGCCCCATTCAGCTTGGCTGGTGTCGTTTCACATGACCCAGGCA
TGGCCAGTCGTCAGGTTGCACCGCCCTTTGGTTCCCGAGCATGCTGTTTTCTCTCAGCCT
TCTCTCCAACCTTAACCAAATCGGCAGCAGCCACCTCGACCGCCCACACATTCCTGGCCA
ATCAGCTCAGCTGTTTATTTACCAAATGTCTTCACAACAACTACAGCAGCAGCCTTCGGC
TAACAAAAAAGC

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

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

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               73-305, - strand, RNAz p=0.99447
               

               
               346-665, - strand, RNAz p=0.927188

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


               
               73-305, - strand, RNAz p=0.99447
               

               
               346-665, - strand, RNAz p=0.927188

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               466-677, - strand, RNAmicro p=0.999581

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


               
               466-677, - strand, RNAmicro p=0.999581

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               73-305, AJ671620 KN224 Bos taurus cDNA clone KN224-006_N24, mRNA sequence 
(emb|AJ671620.1|), blast E-value=0, identity=93.19% 
               

               
               109-305, 1182371 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN282317.1|), 
blast E-value=0, identity=96.45% 
               

               
               109-305, 1183907 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN283686.1|), 
blast E-value=0, identity=96.45% 
               

               
               73-305, LIB5337-002-A1-K1-B7 LIB5337 Canis familiaris cDNA clone 
(gb|DN440675.1|), blast E-value=0, identity=93.67% 
               

               
               73-305, LIB5337-002-A2-K2-B7 LIB5337 Canis familiaris cDNA clone 
(gb|DN440791.1|), blast E-value=0, identity=93.67% 
               

               
               109-305, sh2P0054J18_F.ab1 adult sheep fracture callus 7d Ovis aries cDNA, 
(gb|DY505570.1|), blast E-value=0, identity=96.95%

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


               
               73-305, AJ671620 KN224 Bos taurus cDNA clone KN224-006_N24, mRNA sequence 
(emb|AJ671620.1|), blast E-value=0, identity=93.19% 
               

               
               109-305, 1182371 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN282317.1|), 
blast E-value=0, identity=96.45% 
               

               
               109-305, 1183907 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN283686.1|), 
blast E-value=0, identity=96.45% 
               

               
               73-305, LIB5337-002-A1-K1-B7 LIB5337 Canis familiaris cDNA clone 
(gb|DN440675.1|), blast E-value=0, identity=93.67% 
               

               
               73-305, LIB5337-002-A2-K2-B7 LIB5337 Canis familiaris cDNA clone 
(gb|DN440791.1|), blast E-value=0, identity=93.67% 
               

               
               109-305, sh2P0054J18_F.ab1 adult sheep fracture callus 7d Ovis aries cDNA, 
(gb|DY505570.1|), blast E-value=0, identity=96.95%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-732, gnl|bosTau2|chr23 (9769020-9769746)
               

               
               1-732, gnl|Hg17|chr6 (36675159-36675892)
               

               
               1-732, gnl|Mm7|chr17 (27227360-27228088)

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


               
               1-732, gnl|bosTau2|chr23 (9769020-9769746)
               

               
               1-732, gnl|Hg17|chr6 (36675159-36675892)
               

               
               1-732, gnl|Mm7|chr17 (27227360-27228088)

Expressed library(ies): 5 entry(ies)

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Expressed library(ies): 5 entry(ies)

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               col (0.195008)
               

               
               nco (0.161734)
               

               
               cag (0.151194)
               

               
               pla (0.133672)
               

               
               pgl (0.118483)

Expressed library(ies): 5 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


               
               col (0.195008)
               

               
               nco (0.161734)
               

               
               cag (0.151194)
               

               
               pla (0.133672)
               

               
               pgl (0.118483)

	73-305, - strand, RNAz p=0.99447
	346-665, - strand, RNAz p=0.927188

	73-305, AJ671620 KN224 Bos taurus cDNA clone KN224-006_N24, mRNA sequence (emb\|AJ671620.1\|), blast E-value=0, identity=93.19%
	109-305, 1182371 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN282317.1\|), blast E-value=0, identity=96.45%
	109-305, 1183907 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN283686.1\|), blast E-value=0, identity=96.45%
	73-305, LIB5337-002-A1-K1-B7 LIB5337 Canis familiaris cDNA clone (gb\|DN440675.1\|), blast E-value=0, identity=93.67%
	73-305, LIB5337-002-A2-K2-B7 LIB5337 Canis familiaris cDNA clone (gb\|DN440791.1\|), blast E-value=0, identity=93.67%
	109-305, sh2P0054J18_F.ab1 adult sheep fracture callus 7d Ovis aries cDNA, (gb\|DY505570.1\|), blast E-value=0, identity=96.95%

	1-732, gnl\|bosTau2\|chr23 (9769020-9769746)
	1-732, gnl\|Hg17\|chr6 (36675159-36675892)
	1-732, gnl\|Mm7\|chr17 (27227360-27228088)

	col (0.195008)
	nco (0.161734)
	cag (0.151194)
	pla (0.133672)
	pgl (0.118483)