Non-Coding RNA Search

Ss1.1-Pig4-TMW8047A20.3

Sequence:


               
               AATCCTCTATCCTGGCTTGGTTTGTGAGAAGGTTACTGCTAAATTATTAATCATTGAATC
TGAAATGAGTCATGTAACTGCTCTTCAGAGATAGCCTTTGAAAGATTGACATATAAAAGC
TGTAATTACTTTAAGAGAATATGTAATTACAAAAAATATGTACTATTGTACATTTTTACA
GCAGCATCATTCAAAACAATCAGTGTTTAATGATTATTCTCCATTGAGCCTGAACTCTGC
TTTCCGTGGCAAGTAAATATGAAATATCAACTTTGCACATAACAAAATAAACTGTATAAT
CATTGGGGTGTTGGAGATATGTACTTCAAAAGGTAAATGTACATCAGTTTTTATATTTTT
AAATTCATGTTTGCAAGGTGCCACCCCCACCAGAGACATCTGCAGCAGAAGAAATGGAGA
CGGAGACAGAGTCCACGGCTCTCCAGGAAAAGGAGCAGGATGACACAGCTGCCATGCTGG
CTGACTTCATTGATTGCCCCCCTGATGACGAGAAGCCACCACCTGCCGCAGAGCCTGATT
CCTAGCCCTCTCCTACACCCCCAGCGCCTCGTTTCCAATAAAGTTATGTCCTTGGATAGT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AATCCTCTATCCTGGCTTGGTTTGTGAGAAGGTTACTGCTAAATTATTAATCATTGAATC
TGAAATGAGTCATGTAACTGCTCTTCAGAGATAGCCTTTGAAAGATTGACATATAAAAGC
TGTAATTACTTTAAGAGAATATGTAATTACAAAAAATATGTACTATTGTACATTTTTACA
GCAGCATCATTCAAAACAATCAGTGTTTAATGATTATTCTCCATTGAGCCTGAACTCTGC
TTTCCGTGGCAAGTAAATATGAAATATCAACTTTGCACATAACAAAATAAACTGTATAAT
CATTGGGGTGTTGGAGATATGTACTTCAAAAGGTAAATGTACATCAGTTTTTATATTTTT
AAATTCATGTTTGCAAGGTGCCACCCCCACCAGAGACATCTGCAGCAGAAGAAATGGAGA
CGGAGACAGAGTCCACGGCTCTCCAGGAAAAGGAGCAGGATGACACAGCTGCCATGCTGG
CTGACTTCATTGATTGCCCCCCTGATGACGAGAAGCCACCACCTGCCGCAGAGCCTGATT
CCTAGCCCTCTCCTACACCCCCAGCGCCTCGTTTCCAATAAAGTTATGTCCTTGGATAGT

Predicted RNA structure(s): 1 entry(ies)

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Predicted RNA structure(s): 1 entry(ies)

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               77-267, - strand, RNAz p=0.999855

Predicted RNA structure(s): 1 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


               
               77-267, - strand, RNAz p=0.999855

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               77-267, DB812923 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB812923.1|), blast E-value=0, identity=98.43% 
               

               
               83-265, AM006149 KN-252-bone-marrow, Bos taurus Bos taurus cDNA clone 
(emb|AM006149.1|), blast E-value=1e-39, identity=87.37% 
               

               
               83-265, AM027401 KN-252-lymph, Bos indicus Bos indicus cDNA clone 
(emb|AM027401.1|), blast E-value=3e-37, identity=86.84% 
               

               
               83-265, 4110735 BARC 9BOV Bos taurus cDNA clone 9BOV39_O14 3', mRNA 
(gb|CK978902.1|), blast E-value=3e-37, identity=86.84% 
               

               
               83-265, 001017BEMN049859HT BEMN Bos taurus cDNA, mRNA sequence (gb|DY212094.1|), 
blast E-value=1e-39, identity=87.37% 
               

               
               83-265, LB02222.CR_D03 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb|EE241257.1|), 
blast E-value=1e-39, identity=87.37%

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


               
               77-267, DB812923 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB812923.1|), blast E-value=0, identity=98.43% 
               

               
               83-265, AM006149 KN-252-bone-marrow, Bos taurus Bos taurus cDNA clone 
(emb|AM006149.1|), blast E-value=1e-39, identity=87.37% 
               

               
               83-265, AM027401 KN-252-lymph, Bos indicus Bos indicus cDNA clone 
(emb|AM027401.1|), blast E-value=3e-37, identity=86.84% 
               

               
               83-265, 4110735 BARC 9BOV Bos taurus cDNA clone 9BOV39_O14 3', mRNA 
(gb|CK978902.1|), blast E-value=3e-37, identity=86.84% 
               

               
               83-265, 001017BEMN049859HT BEMN Bos taurus cDNA, mRNA sequence (gb|DY212094.1|), 
blast E-value=1e-39, identity=87.37% 
               

               
               83-265, LB02222.CR_D03 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb|EE241257.1|), 
blast E-value=1e-39, identity=87.37%

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               1-306, gnl|bosTau2|chr26 (26168738-26169053)
               

               
               1-306, gnl|Hg17|chr4 (77393598-77393290)
               

               
               1-306, gnl|Mm7|chr1 (129679601-129679333)
               


               
               450-599, gnl|bosTau2|chr19 (14526179-14526325)
               

               
               450-599, gnl|Hg17|chr17 (4521578-4521431)
               

               
               450-599, gnl|Mm7|chr11 (70474599-70474454)

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


               
               1-306, gnl|bosTau2|chr26 (26168738-26169053)
               

               
               1-306, gnl|Hg17|chr4 (77393598-77393290)
               

               
               1-306, gnl|Mm7|chr1 (129679601-129679333)
               


               
               450-599, gnl|bosTau2|chr19 (14526179-14526325)
               

               
               450-599, gnl|Hg17|chr17 (4521578-4521431)
               

               
               450-599, gnl|Mm7|chr11 (70474599-70474454)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               mas (0.210305)

Expressed library(ies): 1 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


               
               mas (0.210305)

	77-267, DB812923 full-length enriched swine cDNA library, adult ovary Sus (dbj\|DB812923.1\|), blast E-value=0, identity=98.43%
	83-265, AM006149 KN-252-bone-marrow, Bos taurus Bos taurus cDNA clone (emb\|AM006149.1\|), blast E-value=1e-39, identity=87.37%
	83-265, AM027401 KN-252-lymph, Bos indicus Bos indicus cDNA clone (emb\|AM027401.1\|), blast E-value=3e-37, identity=86.84%
	83-265, 4110735 BARC 9BOV Bos taurus cDNA clone 9BOV39_O14 3', mRNA (gb\|CK978902.1\|), blast E-value=3e-37, identity=86.84%
	83-265, 001017BEMN049859HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY212094.1\|), blast E-value=1e-39, identity=87.37%
	83-265, LB02222.CR_D03 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb\|EE241257.1\|), blast E-value=1e-39, identity=87.37%

	1-306, gnl\|bosTau2\|chr26 (26168738-26169053)
	1-306, gnl\|Hg17\|chr4 (77393598-77393290)
	1-306, gnl\|Mm7\|chr1 (129679601-129679333)

	450-599, gnl\|bosTau2\|chr19 (14526179-14526325)
	450-599, gnl\|Hg17\|chr17 (4521578-4521431)
	450-599, gnl\|Mm7\|chr11 (70474599-70474454)