Non-Coding RNA Search

Ss1.1-rcki012_d9.5

Sequence:


               
               CTAGTTCTCTCTCTCTCTCTCTCCAGGACCTCACTGGGGTCATCCCATGGGTGGCCCACC
GCAGGCTTGGGGCCATCCAATGCAAGGTGGACCCCAGCCATGGGGTCACCCCTCAGGGCC
AATGCAAGGGGTACCTCGAGGTAGCAGTATGGGAGTCCGCAATAGCCCTCAGGCTCTAAG
GCGGACAGCTTCTGGGGGACGGACGGAACAGGGCATGAGCAGAAGCACGAGTGTCACTTC
ACAAATATCCAATGGGTCACATATGTCTTATACATAACTTAATAATCGAGAGTGGCAATT
CCGCTGGAGCTGTCTGCCAAAAGAAACTGCCTACAGACATCGTCATAGCAGCCTCCTCAC
TTGGGTACTACAGTGTGGAAGCTGAGTGCATATGGTATATTTTATTCATTTTTGTAAAGC
ATTCTGTTTTGTGTTTACTAATTGGGGTGTCATAGTATCTGGCTGCCGGGTTTTGTTGTT
GTGTGTTTTGTTTTTTTAAACTTTTGGAGAAATTTTGAAAAGGAGAATTAATATGTACGT
GTGTATACACACATACACACATATATATTATGCATGTGGTTACAAGAAATTGGCTAGATA
AGGGGGTATTTTCTGAACACTGCAAAAATGGAATGCAGTAATGTGGCTTGAGTCATCACT
TTTGGGCAATTATATCCTAAGAAGTTTGTGAAAACATCTAAAACTTTT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTAGTTCTCTCTCTCTCTCTCTCCAGGACCTCACTGGGGTCATCCCATGGGTGGCCCACC
GCAGGCTTGGGGCCATCCAATGCAAGGTGGACCCCAGCCATGGGGTCACCCCTCAGGGCC
AATGCAAGGGGTACCTCGAGGTAGCAGTATGGGAGTCCGCAATAGCCCTCAGGCTCTAAG
GCGGACAGCTTCTGGGGGACGGACGGAACAGGGCATGAGCAGAAGCACGAGTGTCACTTC
ACAAATATCCAATGGGTCACATATGTCTTATACATAACTTAATAATCGAGAGTGGCAATT
CCGCTGGAGCTGTCTGCCAAAAGAAACTGCCTACAGACATCGTCATAGCAGCCTCCTCAC
TTGGGTACTACAGTGTGGAAGCTGAGTGCATATGGTATATTTTATTCATTTTTGTAAAGC
ATTCTGTTTTGTGTTTACTAATTGGGGTGTCATAGTATCTGGCTGCCGGGTTTTGTTGTT
GTGTGTTTTGTTTTTTTAAACTTTTGGAGAAATTTTGAAAAGGAGAATTAATATGTACGT
GTGTATACACACATACACACATATATATTATGCATGTGGTTACAAGAAATTGGCTAGATA
AGGGGGTATTTTCTGAACACTGCAAAAATGGAATGCAGTAATGTGGCTTGAGTCATCACT
TTTGGGCAATTATATCCTAAGAAGTTTGTGAAAACATCTAAAACTTTT

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

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

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               22-180, - strand, RNAz p=0.996206
               

               
               461-606, - strand, RNAz p=1

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


               
               22-180, - strand, RNAz p=0.996206
               

               
               461-606, - strand, RNAz p=1

Predicted microRNA(s): 3 entry(ies)

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Predicted microRNA(s): 3 entry(ies)

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               57-183, + strand, RNAmicro p=0.999742
               

               
               376-468, + strand, RNAmicro p=0.998199
               

               
               22-124, - strand, RNAmicro p=0.984951

Predicted microRNA(s): 3 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


               
               57-183, + strand, RNAmicro p=0.999742
               

               
               376-468, + strand, RNAmicro p=0.998199
               

               
               22-124, - strand, RNAmicro p=0.984951

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               22-177, DKFZp686J2145_r1 686 (synonym (emb|AL707021.1|), blast E-value=0, 
identity=97.44% 
               

               
               22-175, K0546C05-3 NIA Mouse Hematopoietic Stem Cell (Lin-/c-Kit+/Sca-1+) 
(gb|BM240100.2|), blast E-value=0, identity=94.81% 
               

               
               22-177, fs26d06.y1 Human Lens cDNA (Normalized) (gb|CD675669.1|), blast 
E-value=0, identity=97.44% 
               

               
               22-175, UI-M-HO0-cnu-k-12-0-UI.r1 NIH_BMAP_HO0 Mus musculus cDNA clone 
(gb|CK638339.1|), blast E-value=0, identity=94.81% 
               

               
               22-175, E0453A04-5 NIA Mouse E11.5 whole embryo cDNA library (Long) Mus 
(gb|CN701704.1|), blast E-value=0, identity=94.81% 
               

               
               22-175, E0456F10-5 NIA Mouse E11.5 whole embryo cDNA library (Long) Mus 
(gb|CN701984.1|), blast E-value=0, identity=94.81%

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


               
               22-177, DKFZp686J2145_r1 686 (synonym (emb|AL707021.1|), blast E-value=0, 
identity=97.44% 
               

               
               22-175, K0546C05-3 NIA Mouse Hematopoietic Stem Cell (Lin-/c-Kit+/Sca-1+) 
(gb|BM240100.2|), blast E-value=0, identity=94.81% 
               

               
               22-177, fs26d06.y1 Human Lens cDNA (Normalized) (gb|CD675669.1|), blast 
E-value=0, identity=97.44% 
               

               
               22-175, UI-M-HO0-cnu-k-12-0-UI.r1 NIH_BMAP_HO0 Mus musculus cDNA clone 
(gb|CK638339.1|), blast E-value=0, identity=94.81% 
               

               
               22-175, E0453A04-5 NIA Mouse E11.5 whole embryo cDNA library (Long) Mus 
(gb|CN701704.1|), blast E-value=0, identity=94.81% 
               

               
               22-175, E0456F10-5 NIA Mouse E11.5 whole embryo cDNA library (Long) Mus 
(gb|CN701984.1|), blast E-value=0, identity=94.81%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               22-708, gnl|bosTau2|chr19 (14091046-14090362)
               

               
               22-708, gnl|Hg17|chr17 (24893911-24894591)
               

               
               22-708, gnl|Mm7|chr11 (77619697-77619040)

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


               
               22-708, gnl|bosTau2|chr19 (14091046-14090362)
               

               
               22-708, gnl|Hg17|chr17 (24893911-24894591)
               

               
               22-708, gnl|Mm7|chr11 (77619697-77619040)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               cki (0.165235)
               

               
               ecc (0.115035)

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


               
               cki (0.165235)
               

               
               ecc (0.115035)

	22-180, - strand, RNAz p=0.996206
	461-606, - strand, RNAz p=1

	57-183, + strand, RNAmicro p=0.999742
	376-468, + strand, RNAmicro p=0.998199
	22-124, - strand, RNAmicro p=0.984951

	22-177, DKFZp686J2145_r1 686 (synonym (emb\|AL707021.1\|), blast E-value=0, identity=97.44%
	22-175, K0546C05-3 NIA Mouse Hematopoietic Stem Cell (Lin-/c-Kit+/Sca-1+) (gb\|BM240100.2\|), blast E-value=0, identity=94.81%
	22-177, fs26d06.y1 Human Lens cDNA (Normalized) (gb\|CD675669.1\|), blast E-value=0, identity=97.44%
	22-175, UI-M-HO0-cnu-k-12-0-UI.r1 NIH_BMAP_HO0 Mus musculus cDNA clone (gb\|CK638339.1\|), blast E-value=0, identity=94.81%
	22-175, E0453A04-5 NIA Mouse E11.5 whole embryo cDNA library (Long) Mus (gb\|CN701704.1\|), blast E-value=0, identity=94.81%
	22-175, E0456F10-5 NIA Mouse E11.5 whole embryo cDNA library (Long) Mus (gb\|CN701984.1\|), blast E-value=0, identity=94.81%

	22-708, gnl\|bosTau2\|chr19 (14091046-14090362)
	22-708, gnl\|Hg17\|chr17 (24893911-24894591)
	22-708, gnl\|Mm7\|chr11 (77619697-77619040)