Non-Coding RNA Search

Ss1.1-Pig4-TMW8042C15.5

Sequence:


               
               ATTATTGTACCATCTGACATAGAATCTTCAAAATCATCTACACGACGACTGAAATCCTCC
TGTGATAGAGAAAGGCGATCTCGTTCTTCCTCATTGTCATCTCAACATTCATCCAAAAGG
GACTGGTCTAAATCTGATAAGGATGACCAGAGCTCTTCAACCCATTCCAGCAGAGACTCA
TACAGATCAAAGTCACACTCACAGTCTTATTCTAGAGGAAGCTCAAGATCAAGAACTCCA
TCAAAATCCTTATCACATTCTCGAAGTAGATCAAAGTCCAGATCTAGTTCAAAGTCAGGG
CACCAAAGAATAGCATCAAAATCACCAAGGAGAACAGCCTCTCAGTTAAGTGAAAATAAA
CTTGTTAAAACAGAACCTTTAAGAGCAGCAGCAGCACAAAATGAAAATGTTGTAGTACAA
CCAGTGGTGGCGGAAAGTATTCCTGTGATACCACTGAGTGATAGTCCCCCTCCTTCAAGA
TGGAAGCCTGGGCAGAAGCCCTGGAAGCCGTCTTATGAACGAATCCAGGAGATGAAAGCG
AAAACAACCCATTTGCTGCCTATTCAAAGCACTTATAGTTTAGCAAATATTAAAGAGACT
GGCAGTTCATCATCTTACCGTAAAAGAGAGAAAAATTCAGAAAGTGATCGAAGTGCTTAT
TCAAAATACAGTGATAGAAGTTCAGAAAGTTCACTAAGGTCAAGGAGCAGATCTTCTAGG
AGTAGATCTTATTCCAGATCATATACAAGGTCACGAAGTCTAGCTAGTTCACATTCAAGG
TCTAGGTCTCCCTCATCTAGATCTCATTCACGAAACAAATACAGTGATCACTCACGTTGT
AGTAGATCATCTTCTTACTCTTCTGTTAGCAGTGATGATGGGAGACGAGCCAAGAGAAAA
TTTAGATCCAGTGGGAAAAAAAATTACACTTCAAATAAAAGGCACAGCAGCAGCTCTGAA
AAGACACTTCGTAATAAATATGTCAAAGGCAGAGAAAAGTCTTCATGTCAGAGAAAGCAT
AGCGAAAGCAGGTCATCTTTAGATTATTCTTCAGACAGTGAACAGTCAAGTGTTCAGGTT
ACACAGTCAGCCCTGGACAAAGAGAAGCAGACCCAGGTGGAAATGAGTACTAAACAAGAG
AAAAACAGAGTTGAAGAGAAATCTAAGCTTGCACAGGAATGCCCACGTACAAAAAAAAGA
ACTTTGAAAGAAAATCTTTCCGATCACTTTAGAAATGGCAGTAAGCCCAAAAGGAAGAAT
TATGCTGGGAGTAAATGGGACTCTGAGTCAAATTCTGAACGAGATATAACTAGAAACAGT
AAAAATAATTCCCGGCTATCTTCTGATAAAGAGGAAGGTGAGGCCACTTCAGATTCTGAG
TCAGAGTTGGGTGAAATTCATATCAAAGTCAAACCCACAACAAAGTCTTCAGCAGATACT
TCACTAACTGATGATAACAGTGGTTGGAAATCAAGCAAACAGCCGTCATCAACCTCTGAT
TCTGAGGAGTTCTATTCCAATTCAGAAAACACTAGAGGAAAGCCACATAAGCACAAACAC
AGCATAAAGGAGAATCTGAAAAGGGAACACACCAAAAAATCGAAAGAG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ATTATTGTACCATCTGACATAGAATCTTCAAAATCATCTACACGACGACTGAAATCCTCC
TGTGATAGAGAAAGGCGATCTCGTTCTTCCTCATTGTCATCTCAACATTCATCCAAAAGG
GACTGGTCTAAATCTGATAAGGATGACCAGAGCTCTTCAACCCATTCCAGCAGAGACTCA
TACAGATCAAAGTCACACTCACAGTCTTATTCTAGAGGAAGCTCAAGATCAAGAACTCCA
TCAAAATCCTTATCACATTCTCGAAGTAGATCAAAGTCCAGATCTAGTTCAAAGTCAGGG
CACCAAAGAATAGCATCAAAATCACCAAGGAGAACAGCCTCTCAGTTAAGTGAAAATAAA
CTTGTTAAAACAGAACCTTTAAGAGCAGCAGCAGCACAAAATGAAAATGTTGTAGTACAA
CCAGTGGTGGCGGAAAGTATTCCTGTGATACCACTGAGTGATAGTCCCCCTCCTTCAAGA
TGGAAGCCTGGGCAGAAGCCCTGGAAGCCGTCTTATGAACGAATCCAGGAGATGAAAGCG
AAAACAACCCATTTGCTGCCTATTCAAAGCACTTATAGTTTAGCAAATATTAAAGAGACT
GGCAGTTCATCATCTTACCGTAAAAGAGAGAAAAATTCAGAAAGTGATCGAAGTGCTTAT
TCAAAATACAGTGATAGAAGTTCAGAAAGTTCACTAAGGTCAAGGAGCAGATCTTCTAGG
AGTAGATCTTATTCCAGATCATATACAAGGTCACGAAGTCTAGCTAGTTCACATTCAAGG
TCTAGGTCTCCCTCATCTAGATCTCATTCACGAAACAAATACAGTGATCACTCACGTTGT
AGTAGATCATCTTCTTACTCTTCTGTTAGCAGTGATGATGGGAGACGAGCCAAGAGAAAA
TTTAGATCCAGTGGGAAAAAAAATTACACTTCAAATAAAAGGCACAGCAGCAGCTCTGAA
AAGACACTTCGTAATAAATATGTCAAAGGCAGAGAAAAGTCTTCATGTCAGAGAAAGCAT
AGCGAAAGCAGGTCATCTTTAGATTATTCTTCAGACAGTGAACAGTCAAGTGTTCAGGTT
ACACAGTCAGCCCTGGACAAAGAGAAGCAGACCCAGGTGGAAATGAGTACTAAACAAGAG
AAAAACAGAGTTGAAGAGAAATCTAAGCTTGCACAGGAATGCCCACGTACAAAAAAAAGA
ACTTTGAAAGAAAATCTTTCCGATCACTTTAGAAATGGCAGTAAGCCCAAAAGGAAGAAT
TATGCTGGGAGTAAATGGGACTCTGAGTCAAATTCTGAACGAGATATAACTAGAAACAGT
AAAAATAATTCCCGGCTATCTTCTGATAAAGAGGAAGGTGAGGCCACTTCAGATTCTGAG
TCAGAGTTGGGTGAAATTCATATCAAAGTCAAACCCACAACAAAGTCTTCAGCAGATACT
TCACTAACTGATGATAACAGTGGTTGGAAATCAAGCAAACAGCCGTCATCAACCTCTGAT
TCTGAGGAGTTCTATTCCAATTCAGAAAACACTAGAGGAAAGCCACATAAGCACAAACAC
AGCATAAAGGAGAATCTGAAAAGGGAACACACCAAAAAATCGAAAGAG

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               Q8CBP6_MOUSE

Coded protein: 1 entry(ies)

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Protein identifier


               
               Q8CBP6_MOUSE

Predicted RNA structure(s): 4 entry(ies)

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Predicted RNA structure(s): 4 entry(ies)

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               120-319, - strand, RNAz p=0.611195
               

               
               400-519, - strand, RNAz p=0.607989
               

               
               720-833, - strand, RNAz p=0.619992
               

               
               1271-1390, - strand, RNAz p=0.993493

Predicted RNA structure(s): 4 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


               
               120-319, - strand, RNAz p=0.611195
               

               
               400-519, - strand, RNAz p=0.607989
               

               
               720-833, - strand, RNAz p=0.619992
               

               
               1271-1390, - strand, RNAz p=0.993493

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               1271-1390, BW969811 full-length enriched swine cDNA library, adult periphral 
(dbj|BW969811.1|), blast E-value=0, identity=99.17% 
               

               
               1271-1386, DB231159 TRACH3 Homo sapiens cDNA clone TRACH3024660 5', mRNA 
(dbj|DB231159.1|), blast E-value=1e-19, identity=86.21% 
               

               
               1271-1387, AM023366 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007391c10 
(emb|AM023366.1|), blast E-value=3e-39, identity=93.16% 
               

               
               1271-1387, AM023986 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007391c10 
(emb|AM023986.1|), blast E-value=7e-37, identity=92.31% 
               

               
               1271-1387, BovGen_19112 normal cattle brain Bos taurus cDNA clone 
(gb|CO890787.1|), blast E-value=3e-39, identity=93.16% 
               

               
               1271-1376, CT02032A1C09 Equine Articular Cartilage cDNA Library Equus caballus 
(gb|CX602221.1|), blast E-value=1e-32, identity=92.45%

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


               
               1271-1390, BW969811 full-length enriched swine cDNA library, adult periphral 
(dbj|BW969811.1|), blast E-value=0, identity=99.17% 
               

               
               1271-1386, DB231159 TRACH3 Homo sapiens cDNA clone TRACH3024660 5', mRNA 
(dbj|DB231159.1|), blast E-value=1e-19, identity=86.21% 
               

               
               1271-1387, AM023366 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007391c10 
(emb|AM023366.1|), blast E-value=3e-39, identity=93.16% 
               

               
               1271-1387, AM023986 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007391c10 
(emb|AM023986.1|), blast E-value=7e-37, identity=92.31% 
               

               
               1271-1387, BovGen_19112 normal cattle brain Bos taurus cDNA clone 
(gb|CO890787.1|), blast E-value=3e-39, identity=93.16% 
               

               
               1271-1376, CT02032A1C09 Equine Articular Cartilage cDNA Library Equus caballus 
(gb|CX602221.1|), blast E-value=1e-32, identity=92.45%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1608, gnl|bosTau2|chr22 (7412042-7410441)
               

               
               1-1608, gnl|Hg17|chr3 (42653575-42655185)
               

               
               1-1608, gnl|Mm7|chr9 (121450348-121451931)

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


               
               1-1608, gnl|bosTau2|chr22 (7412042-7410441)
               

               
               1-1608, gnl|Hg17|chr3 (42653575-42655185)
               

               
               1-1608, gnl|Mm7|chr9 (121450348-121451931)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               nje (0.16592)
               

               
               eje (0.0988338)

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


               
               nje (0.16592)
               

               
               eje (0.0988338)

	120-319, - strand, RNAz p=0.611195
	400-519, - strand, RNAz p=0.607989
	720-833, - strand, RNAz p=0.619992
	1271-1390, - strand, RNAz p=0.993493

	1271-1390, BW969811 full-length enriched swine cDNA library, adult periphral (dbj\|BW969811.1\|), blast E-value=0, identity=99.17%
	1271-1386, DB231159 TRACH3 Homo sapiens cDNA clone TRACH3024660 5', mRNA (dbj\|DB231159.1\|), blast E-value=1e-19, identity=86.21%
	1271-1387, AM023366 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007391c10 (emb\|AM023366.1\|), blast E-value=3e-39, identity=93.16%
	1271-1387, AM023986 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007391c10 (emb\|AM023986.1\|), blast E-value=7e-37, identity=92.31%
	1271-1387, BovGen_19112 normal cattle brain Bos taurus cDNA clone (gb\|CO890787.1\|), blast E-value=3e-39, identity=93.16%
	1271-1376, CT02032A1C09 Equine Articular Cartilage cDNA Library Equus caballus (gb\|CX602221.1\|), blast E-value=1e-32, identity=92.45%

	1-1608, gnl\|bosTau2\|chr22 (7412042-7410441)
	1-1608, gnl\|Hg17\|chr3 (42653575-42655185)
	1-1608, gnl\|Mm7\|chr9 (121450348-121451931)