Non-Coding RNA Search

Ss1.1-rpldo0108_a23.5

Sequence:


               
               AATATACACAAATGATTTGAACAGGTTTTATATTCAGTAACTTGCATGGTTTTTACCCTG
GCACTTTTATCACTAATTTAGGAGAATCAGATGCATTTCCCTCCATATACGTAGGCACTA
AGATTTCAAATTTATAAATATGGTAGTATTTTAAATATTAAATTTTTACATGAATATTGG
GTTCATTCTTATTTTCCTTTGTTCCCTAGGTATTATCCAGTTTTGTAAGGAAAACACTTT
TATATCACAATCAAAACTTGTCTTGGTTACTAGACTGTAGCCATAATTGGGTTACAGTTG
CTTCGATTCATTATTTGGAATTATACTTACTAAGGCAGACCTAAATGAAACTTATCTTCT
AGAATAATTTCACATTTGCATTTACCTGCACTGCAGAATGGGTTTCAGCAATATATTAGC
TGTTAGGAAATATTTAATTTACTTAAACTTGTTATCTCTGACTACCTGGAACTCCTAGAG
TAGTCAACTTTACCTTTGAGTTCACTTTAAACTGTCTGATTCATTCCAAACAGAGGATTT
TTAAATAGAAGTTAGACTTCATTAAGGTATTAACTTTAAATCTGAAGGAAAGTTAATGTA
CTAAAATTTTCA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AATATACACAAATGATTTGAACAGGTTTTATATTCAGTAACTTGCATGGTTTTTACCCTG
GCACTTTTATCACTAATTTAGGAGAATCAGATGCATTTCCCTCCATATACGTAGGCACTA
AGATTTCAAATTTATAAATATGGTAGTATTTTAAATATTAAATTTTTACATGAATATTGG
GTTCATTCTTATTTTCCTTTGTTCCCTAGGTATTATCCAGTTTTGTAAGGAAAACACTTT
TATATCACAATCAAAACTTGTCTTGGTTACTAGACTGTAGCCATAATTGGGTTACAGTTG
CTTCGATTCATTATTTGGAATTATACTTACTAAGGCAGACCTAAATGAAACTTATCTTCT
AGAATAATTTCACATTTGCATTTACCTGCACTGCAGAATGGGTTTCAGCAATATATTAGC
TGTTAGGAAATATTTAATTTACTTAAACTTGTTATCTCTGACTACCTGGAACTCCTAGAG
TAGTCAACTTTACCTTTGAGTTCACTTTAAACTGTCTGATTCATTCCAAACAGAGGATTT
TTAAATAGAAGTTAGACTTCATTAAGGTATTAACTTTAAATCTGAAGGAAAGTTAATGTA
CTAAAATTTTCA

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

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

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               192-389, - strand, RNAz p=0.966115
               

               
               393-499, - strand, RNAz p=0.951541

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


               
               192-389, - strand, RNAz p=0.966115
               

               
               393-499, - strand, RNAz p=0.951541

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               254-389, BB650627 RIKEN full-length enriched, 0 day neonate cerebellum Mus 
(dbj|BB650627.1|), blast E-value=0, identity=93.38% 
               

               
               254-389, CJ062390 RIKEN full-length enriched mouse cDNA library, C57BL/6J 
(dbj|CJ062390.1|), blast E-value=1.4013e-45, identity=92.65% 
               

               
               199-389, 602279760F1 NIH_MGC_86 Homo sapiens cDNA clone IMAGE (gb|BG110133.1|), 
blast E-value=0, identity=92.19% 
               

               
               239-389, AGENCOURT_17839550 NIH_MGC_238 Rattus norvegicus cDNA clone 
(gb|CK599106.1|), blast E-value=0, identity=92.72% 
               

               
               193-389, BovGen_07350 normal cattle brain Bos taurus cDNA clone 
(gb|CO879025.1|), blast E-value=0, identity=92.93% 
               

               
               193-389, LB00417.CR_M05 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb|DT832734.1|), 
blast E-value=0, identity=92.93%

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


               
               254-389, BB650627 RIKEN full-length enriched, 0 day neonate cerebellum Mus 
(dbj|BB650627.1|), blast E-value=0, identity=93.38% 
               

               
               254-389, CJ062390 RIKEN full-length enriched mouse cDNA library, C57BL/6J 
(dbj|CJ062390.1|), blast E-value=1.4013e-45, identity=92.65% 
               

               
               199-389, 602279760F1 NIH_MGC_86 Homo sapiens cDNA clone IMAGE (gb|BG110133.1|), 
blast E-value=0, identity=92.19% 
               

               
               239-389, AGENCOURT_17839550 NIH_MGC_238 Rattus norvegicus cDNA clone 
(gb|CK599106.1|), blast E-value=0, identity=92.72% 
               

               
               193-389, BovGen_07350 normal cattle brain Bos taurus cDNA clone 
(gb|CO879025.1|), blast E-value=0, identity=92.93% 
               

               
               193-389, LB00417.CR_M05 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb|DT832734.1|), 
blast E-value=0, identity=92.93%

Aligned organism(s): 14 entry(ies)

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Aligned organism(s): 14 entry(ies)

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               1-612, gnl|bosTau2|chr19 (37610395-37611017)
               

               
               1-612, gnl|canFam2|chr9 (22112697-22112257)
               

               
               1-612, gnl|dasNov1|scaffold_13500 (23165-23601)
               

               
               1-612, gnl|galGal2|chr27 (1667179-1666808)
               

               
               1-612, gnl|hg17|chr17 (40107129-40107557)
               

               
               1-612, gnl|Hg17|chr17 (40107782-40107173)
               

               
               1-612, gnl|loxAfr1|scaffold_35613 (6016-5589)
               

               
               1-612, gnl|mm7|chr11 (102789824-102790249)
               

               
               1-612, gnl|Mm7|chr11 (102790470-102789865)
               

               
               1-612, gnl|monDom2|scaffold_18 (41967675-41967225)
               

               
               1-612, gnl|oryCun1|scaffold_105996 (11838-12266)
               

               
               1-612, gnl|panTro1|chr19 (43315197-43315620)
               

               
               1-612, gnl|rheMac2|chr16 (54760019-54760448)
               

               
               1-612, gnl|rn3|chr10 (91811251-91811674)

Aligned organism(s): 14 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


               
               1-612, gnl|bosTau2|chr19 (37610395-37611017)
               

               
               1-612, gnl|canFam2|chr9 (22112697-22112257)
               

               
               1-612, gnl|dasNov1|scaffold_13500 (23165-23601)
               

               
               1-612, gnl|galGal2|chr27 (1667179-1666808)
               

               
               1-612, gnl|hg17|chr17 (40107129-40107557)
               

               
               1-612, gnl|Hg17|chr17 (40107782-40107173)
               

               
               1-612, gnl|loxAfr1|scaffold_35613 (6016-5589)
               

               
               1-612, gnl|mm7|chr11 (102789824-102790249)
               

               
               1-612, gnl|Mm7|chr11 (102790470-102789865)
               

               
               1-612, gnl|monDom2|scaffold_18 (41967675-41967225)
               

               
               1-612, gnl|oryCun1|scaffold_105996 (11838-12266)
               

               
               1-612, gnl|panTro1|chr19 (43315197-43315620)
               

               
               1-612, gnl|rheMac2|chr16 (54760019-54760448)
               

               
               1-612, gnl|rn3|chr10 (91811251-91811674)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               bla (0.124347)
               

               
               ldo (0.0970026)

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


               
               bla (0.124347)
               

               
               ldo (0.0970026)

	192-389, - strand, RNAz p=0.966115
	393-499, - strand, RNAz p=0.951541

	254-389, BB650627 RIKEN full-length enriched, 0 day neonate cerebellum Mus (dbj\|BB650627.1\|), blast E-value=0, identity=93.38%
	254-389, CJ062390 RIKEN full-length enriched mouse cDNA library, C57BL/6J (dbj\|CJ062390.1\|), blast E-value=1.4013e-45, identity=92.65%
	199-389, 602279760F1 NIH_MGC_86 Homo sapiens cDNA clone IMAGE (gb\|BG110133.1\|), blast E-value=0, identity=92.19%
	239-389, AGENCOURT_17839550 NIH_MGC_238 Rattus norvegicus cDNA clone (gb\|CK599106.1\|), blast E-value=0, identity=92.72%
	193-389, BovGen_07350 normal cattle brain Bos taurus cDNA clone (gb\|CO879025.1\|), blast E-value=0, identity=92.93%
	193-389, LB00417.CR_M05 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb\|DT832734.1\|), blast E-value=0, identity=92.93%

	1-612, gnl\|bosTau2\|chr19 (37610395-37611017)
	1-612, gnl\|canFam2\|chr9 (22112697-22112257)
	1-612, gnl\|dasNov1\|scaffold_13500 (23165-23601)
	1-612, gnl\|galGal2\|chr27 (1667179-1666808)
	1-612, gnl\|hg17\|chr17 (40107129-40107557)
	1-612, gnl\|Hg17\|chr17 (40107782-40107173)
	1-612, gnl\|loxAfr1\|scaffold_35613 (6016-5589)
	1-612, gnl\|mm7\|chr11 (102789824-102790249)
	1-612, gnl\|Mm7\|chr11 (102790470-102789865)
	1-612, gnl\|monDom2\|scaffold_18 (41967675-41967225)
	1-612, gnl\|oryCun1\|scaffold_105996 (11838-12266)
	1-612, gnl\|panTro1\|chr19 (43315197-43315620)
	1-612, gnl\|rheMac2\|chr16 (54760019-54760448)
	1-612, gnl\|rn3\|chr10 (91811251-91811674)