Non-Coding RNA Search

Ss1.1-Pig4-TMW8037D20.3

Sequence:


               
               GGCGGGGGAGGGGGGACCATGACTTCTTTCTCATCACCAGGAACTAGATTCGGCCACAGG
GCCCCCAAAGAAACTATGGTGTAGAGAAGGAACTCTTATCTCCCACAAAAGTTTAATAAA
CCCCAAAGAGTTTCTCCGACCGACAAATCTGGTCCACTATCTACTAACTATATTTTCCCT
TGTTACTGCTTGCAGTAATTCAACGAGAATTAAGAAACTAGACTCCATTGTGCCTTATTA
AATACAGGAATGTCTAACTTAAATAGCTTTGAGATTTCAGCTGTACTAGAGGCTTTTATT
AGAAAGCCATTTTTTTCTGTAAAAGTTACTAATATATCTGTAACACTATTATCATATTTG
CTATTTATATTTCATTCAGATATAAGGTTTGTACATATTACCATCCTGAAGGGAAACTGT
ATAAGACTTAATTCTAGAAAGAAAAAAATATATATATTCTGTTTATTACTATGACAAGTG
AAAGAGATAAAATATATTTTTTAATAGAATGTTTGTAGCATTTCCTAATAGGTACTGCCA
TTCTTCCTGTGTAGAGTATTTTTGTAATATACTTTTACCTGTATAAGCTGTAATATCATT
TTATAGAAAATGCATTATTTAGTCAATTGTTTAATGTTGGAAAGTGTATGAAATATAAAT
TATCTGAATATTAGATGCTCTGAGAAATTGAATGTATCTTATTTAAAAGATTTTATGTTT
TTACTATATTAACATCATTAAAGTTTTCAAATTATT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGCGGGGGAGGGGGGACCATGACTTCTTTCTCATCACCAGGAACTAGATTCGGCCACAGG
GCCCCCAAAGAAACTATGGTGTAGAGAAGGAACTCTTATCTCCCACAAAAGTTTAATAAA
CCCCAAAGAGTTTCTCCGACCGACAAATCTGGTCCACTATCTACTAACTATATTTTCCCT
TGTTACTGCTTGCAGTAATTCAACGAGAATTAAGAAACTAGACTCCATTGTGCCTTATTA
AATACAGGAATGTCTAACTTAAATAGCTTTGAGATTTCAGCTGTACTAGAGGCTTTTATT
AGAAAGCCATTTTTTTCTGTAAAAGTTACTAATATATCTGTAACACTATTATCATATTTG
CTATTTATATTTCATTCAGATATAAGGTTTGTACATATTACCATCCTGAAGGGAAACTGT
ATAAGACTTAATTCTAGAAAGAAAAAAATATATATATTCTGTTTATTACTATGACAAGTG
AAAGAGATAAAATATATTTTTTAATAGAATGTTTGTAGCATTTCCTAATAGGTACTGCCA
TTCTTCCTGTGTAGAGTATTTTTGTAATATACTTTTACCTGTATAAGCTGTAATATCATT
TTATAGAAAATGCATTATTTAGTCAATTGTTTAATGTTGGAAAGTGTATGAAATATAAAT
TATCTGAATATTAGATGCTCTGAGAAATTGAATGTATCTTATTTAAAAGATTTTATGTTT
TTACTATATTAACATCATTAAAGTTTTCAAATTATT

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

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

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               1-197, + strand, RNAz p=0.998853
               

               
               249-366, - strand, RNAz p=0.78535

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


               
               1-197, + strand, RNAz p=0.998853
               

               
               249-366, - strand, RNAz p=0.78535

Similar Transcript(s): 2 entry(ies)

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Similar Transcript(s): 2 entry(ies)

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               19-197, BovGen_12878 normal cattle brain Bos taurus cDNA clone (gb|CO884553.1|), 
blast E-value=1e-27, identity=85% 
               

               
               24-197, CT020013B10B09 Equine Articular Cartilage cDNA Library Equus 
(gb|CX596190.1|), blast E-value=2e-20, identity=83.43%

Similar Transcript(s): 2 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


               
               19-197, BovGen_12878 normal cattle brain Bos taurus cDNA clone (gb|CO884553.1|), 
blast E-value=1e-27, identity=85% 
               

               
               24-197, CT020013B10B09 Equine Articular Cartilage cDNA Library Equus 
(gb|CX596190.1|), blast E-value=2e-20, identity=83.43%

Aligned organism(s): 14 entry(ies)

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Aligned organism(s): 14 entry(ies)

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               1-756, gnl|bosTau2|chr14 (25997915-25997154)
               

               
               1-756, gnl|canFam2|chr13 (21188478-21188995)
               

               
               1-756, gnl|echTel1|scaffold_314311 (38328-37803)
               

               
               1-756, gnl|galGal2|chr2 (132889691-132889183)
               

               
               1-756, gnl|hg17|chr8 (120004980-120005496)
               

               
               1-756, gnl|Hg17|chr8 (120005725-120004982)
               

               
               1-756, gnl|loxAfr1|scaffold_1309 (86395-86919)
               

               
               1-756, gnl|mm7|chr15 (54310741-54311259)
               

               
               1-756, gnl|Mm7|chr15 (54312042-54310743)
               

               
               1-756, gnl|monDom2|scaffold_3 (37163780-37163261)
               

               
               1-756, gnl|oryCun1|scaffold_200461 (58926-59448)
               

               
               1-756, gnl|panTro1|chr7 (122767440-122767946)
               

               
               1-756, gnl|rheMac2|chr8 (121444974-121445487)
               

               
               1-756, gnl|rn3|chr7 (90640657-90641172)

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


               
               1-756, gnl|bosTau2|chr14 (25997915-25997154)
               

               
               1-756, gnl|canFam2|chr13 (21188478-21188995)
               

               
               1-756, gnl|echTel1|scaffold_314311 (38328-37803)
               

               
               1-756, gnl|galGal2|chr2 (132889691-132889183)
               

               
               1-756, gnl|hg17|chr8 (120004980-120005496)
               

               
               1-756, gnl|Hg17|chr8 (120005725-120004982)
               

               
               1-756, gnl|loxAfr1|scaffold_1309 (86395-86919)
               

               
               1-756, gnl|mm7|chr15 (54310741-54311259)
               

               
               1-756, gnl|Mm7|chr15 (54312042-54310743)
               

               
               1-756, gnl|monDom2|scaffold_3 (37163780-37163261)
               

               
               1-756, gnl|oryCun1|scaffold_200461 (58926-59448)
               

               
               1-756, gnl|panTro1|chr7 (122767440-122767946)
               

               
               1-756, gnl|rheMac2|chr8 (121444974-121445487)
               

               
               1-756, gnl|rn3|chr7 (90640657-90641172)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               tra (0.369276)

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


               
               tra (0.369276)

	1-197, + strand, RNAz p=0.998853
	249-366, - strand, RNAz p=0.78535

	19-197, BovGen_12878 normal cattle brain Bos taurus cDNA clone (gb\|CO884553.1\|), blast E-value=1e-27, identity=85%
	24-197, CT020013B10B09 Equine Articular Cartilage cDNA Library Equus (gb\|CX596190.1\|), blast E-value=2e-20, identity=83.43%

	1-756, gnl\|bosTau2\|chr14 (25997915-25997154)
	1-756, gnl\|canFam2\|chr13 (21188478-21188995)
	1-756, gnl\|echTel1\|scaffold_314311 (38328-37803)
	1-756, gnl\|galGal2\|chr2 (132889691-132889183)
	1-756, gnl\|hg17\|chr8 (120004980-120005496)
	1-756, gnl\|Hg17\|chr8 (120005725-120004982)
	1-756, gnl\|loxAfr1\|scaffold_1309 (86395-86919)
	1-756, gnl\|mm7\|chr15 (54310741-54311259)
	1-756, gnl\|Mm7\|chr15 (54312042-54310743)
	1-756, gnl\|monDom2\|scaffold_3 (37163780-37163261)
	1-756, gnl\|oryCun1\|scaffold_200461 (58926-59448)
	1-756, gnl\|panTro1\|chr7 (122767440-122767946)
	1-756, gnl\|rheMac2\|chr8 (121444974-121445487)
	1-756, gnl\|rn3\|chr7 (90640657-90641172)