Non-Coding RNA Search

Ss1.1-Pig4-TMW8066A18.3

Sequence:


               
               CAAGTTTCAAGGCAGGTCTCTCTCCCCATGGGATCTAGAGGAACCATGCTGTTGGGATTG
GGTAGCAGTCTCTCCCAGATGCCCACGAGGCCTCAGCACACTCCCCCTTTGGGGCCAGGG
CCCCAGAGAGCCCAGGATAGGAATCCCTCTGGCCCCTGTGCTGCTATGCTTGTTGGGAGC
CTGCATGTGTGTGTGTCAGGGAGACCAAGTGGGTAGGTGATGGGATAGTGGACGTGGACC
TGGGATGTGTGGGATGCTGAGTGGGGCTGTGTGTGCGTGTGTGAGCACTCGCCTTGTGCA
TTGTGGAAAGTGAGGGGGAGAGCGTGTGAGTGATTTTAAAGTGTGTGTTGGAGTTTCAGG
TGTGGCTCAGCAGAAACGAATCCTACTAATATCCATGAGGATGTGGGTTCCATCCCTAGC
CCTGCTCAGAGGGTTAAGGATCTGGTGTGGCTGTGGCTGTGGCTTANGCTGGCAGCTGTA
GCTCTGATTCAACTCCTAGCCTGAGATTTTACATAAGCCGCAGGTGCAGCCCTAAAAAGC
AAAAACAAACAAAAAAAGTGTGTAGGGGGGGCAGGTGGGTTCGTGGGGGTTAGGGGAACA
TGCATGGACCGAGTGTGAGTGCAGGTGAGTGTGAGTGTCACACAGTTAGGGGCGGTTGGG
GGGAGTCAGAGCACCTCAACAACCATTTTCTGAGCACCAGCTCTGCACAAAGCCCCAGGC
GACACAGAGACCTAGGTTGTCCCCAAGATCTGGCTGAGGGTAACGGTGTCCAGGCTGCAT
GTCGGTTTATGTGTTCCTTTCTTTTGCCCACCTCTTTACAAACCTCATGGGGCTCCCGCA
CAACCCAGGATCATCCTCCAGCATCAGCCCCCTGAGAGGCAGGGGGAGGAAGGGCAAAGG
GGCTCCTCCTTGCCTAGACATGGTTGGCCAACTTCTTGGCAGTGCCCTGTCAGCTAAGCC
CCTTTGCCACTGCCTGACCCTGGGGAGGGCGGGGGCAATCTGAGGGAAGAGGGAAGAAGG
CTTGCAGCTGGGTCTGGTGTCTGGTCTTCCCAGAGGCAGGCAGGCAGGCAGGGGCCATCC
TGTGCCTGCACCCTGGTAAAGGTGACCCCTGCCAGTTGTCAGCAGCCATAGCACATTCCT
GCTCCACGAGGATAGAATGTGGAGCTCCAGAAACTTTCCATCCAAAGGCCATCTCTGGGA
TCGGACAGGGAGTCTGGATTCTTGTTCTTTCCCTACCCTCTTGCTCCTCCCTGGGGGTCG
GGGCACTGTGCCAGGACTCCAACCTCAGGGACTTGGGTGGCCAGTGTTAACTTCTTTTGA
TACTAAGACCTCTTTTAAGGTAGGAGGGAGAGCAGCAAGAGACATTCTTAATAAACCAAT
TCTCAGCCTCACCTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CAAGTTTCAAGGCAGGTCTCTCTCCCCATGGGATCTAGAGGAACCATGCTGTTGGGATTG
GGTAGCAGTCTCTCCCAGATGCCCACGAGGCCTCAGCACACTCCCCCTTTGGGGCCAGGG
CCCCAGAGAGCCCAGGATAGGAATCCCTCTGGCCCCTGTGCTGCTATGCTTGTTGGGAGC
CTGCATGTGTGTGTGTCAGGGAGACCAAGTGGGTAGGTGATGGGATAGTGGACGTGGACC
TGGGATGTGTGGGATGCTGAGTGGGGCTGTGTGTGCGTGTGTGAGCACTCGCCTTGTGCA
TTGTGGAAAGTGAGGGGGAGAGCGTGTGAGTGATTTTAAAGTGTGTGTTGGAGTTTCAGG
TGTGGCTCAGCAGAAACGAATCCTACTAATATCCATGAGGATGTGGGTTCCATCCCTAGC
CCTGCTCAGAGGGTTAAGGATCTGGTGTGGCTGTGGCTGTGGCTTANGCTGGCAGCTGTA
GCTCTGATTCAACTCCTAGCCTGAGATTTTACATAAGCCGCAGGTGCAGCCCTAAAAAGC
AAAAACAAACAAAAAAAGTGTGTAGGGGGGGCAGGTGGGTTCGTGGGGGTTAGGGGAACA
TGCATGGACCGAGTGTGAGTGCAGGTGAGTGTGAGTGTCACACAGTTAGGGGCGGTTGGG
GGGAGTCAGAGCACCTCAACAACCATTTTCTGAGCACCAGCTCTGCACAAAGCCCCAGGC
GACACAGAGACCTAGGTTGTCCCCAAGATCTGGCTGAGGGTAACGGTGTCCAGGCTGCAT
GTCGGTTTATGTGTTCCTTTCTTTTGCCCACCTCTTTACAAACCTCATGGGGCTCCCGCA
CAACCCAGGATCATCCTCCAGCATCAGCCCCCTGAGAGGCAGGGGGAGGAAGGGCAAAGG
GGCTCCTCCTTGCCTAGACATGGTTGGCCAACTTCTTGGCAGTGCCCTGTCAGCTAAGCC
CCTTTGCCACTGCCTGACCCTGGGGAGGGCGGGGGCAATCTGAGGGAAGAGGGAAGAAGG
CTTGCAGCTGGGTCTGGTGTCTGGTCTTCCCAGAGGCAGGCAGGCAGGCAGGGGCCATCC
TGTGCCTGCACCCTGGTAAAGGTGACCCCTGCCAGTTGTCAGCAGCCATAGCACATTCCT
GCTCCACGAGGATAGAATGTGGAGCTCCAGAAACTTTCCATCCAAAGGCCATCTCTGGGA
TCGGACAGGGAGTCTGGATTCTTGTTCTTTCCCTACCCTCTTGCTCCTCCCTGGGGGTCG
GGGCACTGTGCCAGGACTCCAACCTCAGGGACTTGGGTGGCCAGTGTTAACTTCTTTTGA
TACTAAGACCTCTTTTAAGGTAGGAGGGAGAGCAGCAAGAGACATTCTTAATAAACCAAT
TCTCAGCCTCACCTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAA

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

More info

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

Help | Less info


               
               947-1158, - strand, RNAz p=0.999999
               

               
               1196-1315, - strand, RNAz p=0.562654

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

Help | Less info

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


               
               947-1158, - strand, RNAz p=0.999999
               

               
               1196-1315, - strand, RNAz p=0.562654

Predicted microRNA(s): 1 entry(ies)

More info

Predicted microRNA(s): 1 entry(ies)

Help | Less info


               
               1121-1215, - strand, RNAmicro p=0.90372

Predicted microRNA(s): 1 entry(ies)

Help | Less info

PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               1121-1215, - strand, RNAmicro p=0.90372

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               1064-1158, 91673 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW632118.1|), 
blast E-value=4e-21, identity=89.47% 
               

               
               953-1157, 523535 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BM258680.1|), 
blast E-value=3e-22, identity=82.38% 
               

               
               953-1157, 967563 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK776412.1|), 
blast E-value=1e-21, identity=82.86% 
               

               
               953-1157, 1366392 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN533508.1|), 
blast E-value=4e-24, identity=83.33% 
               

               
               953-1157, 1367928 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN534933.1|), 
blast E-value=3e-22, identity=82.38% 
               

               
               953-1157, 1450300 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY453937.1|), 
blast E-value=4e-24, identity=83.33%

Similar Transcript(s): 6 entry(ies)

Help | Less info

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


               
               1064-1158, 91673 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW632118.1|), 
blast E-value=4e-21, identity=89.47% 
               

               
               953-1157, 523535 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BM258680.1|), 
blast E-value=3e-22, identity=82.38% 
               

               
               953-1157, 967563 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK776412.1|), 
blast E-value=1e-21, identity=82.86% 
               

               
               953-1157, 1366392 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN533508.1|), 
blast E-value=4e-24, identity=83.33% 
               

               
               953-1157, 1367928 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN534933.1|), 
blast E-value=3e-22, identity=82.38% 
               

               
               953-1157, 1450300 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY453937.1|), 
blast E-value=4e-24, identity=83.33%

Aligned organism(s): 4 entry(ies)

More info

Aligned organism(s): 4 entry(ies)

Help | Less info


               
               21-271, gnl|bosTau2|chr19 (32318042-32317776)
               

               
               21-271, gnl|Hg17|chr17 (35082083-35081840)
               


               
               556-1395, gnl|bosTau2|chr19 (32317732-32316936)
               

               
               556-1395, gnl|Hg17|chr17 (35081779-35080897)

Aligned organism(s): 4 entry(ies)

Help | Less info

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


               
               21-271, gnl|bosTau2|chr19 (32318042-32317776)
               

               
               21-271, gnl|Hg17|chr17 (35082083-35081840)
               


               
               556-1395, gnl|bosTau2|chr19 (32317732-32316936)
               

               
               556-1395, gnl|Hg17|chr17 (35081779-35080897)

Expressed library(ies): 5 entry(ies)

More info

Expressed library(ies): 5 entry(ies)

Help | Less info


               
               pla (0.267344)
               

               
               ton (0.1755)
               

               
               nmm (0.132802)
               

               
               jca (0.11396)
               

               
               jej (0.0989218)

Expressed library(ies): 5 entry(ies)

Help | Less info

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


               
               pla (0.267344)
               

               
               ton (0.1755)
               

               
               nmm (0.132802)
               

               
               jca (0.11396)
               

               
               jej (0.0989218)

	947-1158, - strand, RNAz p=0.999999
	1196-1315, - strand, RNAz p=0.562654

	1064-1158, 91673 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW632118.1\|), blast E-value=4e-21, identity=89.47%
	953-1157, 523535 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb\|BM258680.1\|), blast E-value=3e-22, identity=82.38%
	953-1157, 967563 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK776412.1\|), blast E-value=1e-21, identity=82.86%
	953-1157, 1366392 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN533508.1\|), blast E-value=4e-24, identity=83.33%
	953-1157, 1367928 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN534933.1\|), blast E-value=3e-22, identity=82.38%
	953-1157, 1450300 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb\|DY453937.1\|), blast E-value=4e-24, identity=83.33%

	21-271, gnl\|bosTau2\|chr19 (32318042-32317776)
	21-271, gnl\|Hg17\|chr17 (35082083-35081840)

	556-1395, gnl\|bosTau2\|chr19 (32317732-32316936)
	556-1395, gnl\|Hg17\|chr17 (35081779-35080897)

	pla (0.267344)
	ton (0.1755)
	nmm (0.132802)
	jca (0.11396)
	jej (0.0989218)