Non-Coding RNA Search

Ss1.1-OvF2-UMC-p2mm4-004-h03.3

Sequence:


               
               GAGAAAGGATGGGTCTGAAGTCCAAAGTGAAACAGATAAAGGAACTTATGTTAAGGCCTG
AGACTCAGGCCAGAATTAGGAGGGAGCTTTTTGAAGGAAGATCCATTAACCACAGTTATC
AAGGAAAAGAGGTTGATTATTTCAGCACAATTTTGACATAAGCTCTACATTGCTCTCATG
GTACCAGAGTTTATGAAATCTTTTCAGTTCATTAAATGGCTCTTTGGTAAATACCAAAGA
AGATAGTGTCTGCACAATAGCAGACCAACATTTGGTAAGGAATTAATCATTTCTTGCCAA
AGAAAACTGATTCTTCCCTGTTATTTTTAAGTCAGATGTGTTTTAGAATGTTTATCTCTA
ATATCAAAATTCATTTTATAGAAAAGACTTCTTAACTAGCTGTTGTGAGATGGTCTTTGG
GTCCTCACAGATAAAATGTACAGACTGTGAAAAATCATTTACAGACAAAAAAAAAAAAAT
ACAGCATTTTAAGGTCACTGACATGATTTTTGTTAAATCAAAAGAAGCATTGTTCTCATG
TATCTATATCTCGTGTGACTTTTAATGAGACTTTGAATGTTTATTGATCACTGGTACTTG
AATGAACATTTATAAATGTAAATGTAATTATTGTAATCACTGGTTACGAATGTTTTATAA
CGTCCATATGTATTACTTTTCAATGATCAAAATGTAGTTTGCTTTTTCATTTCTTAATGA
ATGTTCGGGATTTTTATTTTCTACTTTTATGAAGATAAGCCCCAGGTCTTACTGTATCCC
TTATAATCTGAATTTGTTTGCACTGGTTCATTTTTAAAGACAATTCTTAAAAATTTTCCC
TCCCCTATGATCATCACTGGTAACAGCTTTTTCTATAGTCATTGTAAAATCGCTGCTACT
AAGAGATCATGATGCAGGGGGAAATTATTGGAGATCAAATATGTAGTCATTTCAAATATA
AAATCCAGTTTACTCATGGATTTTAGCTATTTTTTCACTGGGTAAATTATAATTATATTA
CATTTATTTATAAGTGAGTTTATGCATTTTCATGCCTCTTAATAAATGCATTGTTTTCCC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAGAAAGGATGGGTCTGAAGTCCAAAGTGAAACAGATAAAGGAACTTATGTTAAGGCCTG
AGACTCAGGCCAGAATTAGGAGGGAGCTTTTTGAAGGAAGATCCATTAACCACAGTTATC
AAGGAAAAGAGGTTGATTATTTCAGCACAATTTTGACATAAGCTCTACATTGCTCTCATG
GTACCAGAGTTTATGAAATCTTTTCAGTTCATTAAATGGCTCTTTGGTAAATACCAAAGA
AGATAGTGTCTGCACAATAGCAGACCAACATTTGGTAAGGAATTAATCATTTCTTGCCAA
AGAAAACTGATTCTTCCCTGTTATTTTTAAGTCAGATGTGTTTTAGAATGTTTATCTCTA
ATATCAAAATTCATTTTATAGAAAAGACTTCTTAACTAGCTGTTGTGAGATGGTCTTTGG
GTCCTCACAGATAAAATGTACAGACTGTGAAAAATCATTTACAGACAAAAAAAAAAAAAT
ACAGCATTTTAAGGTCACTGACATGATTTTTGTTAAATCAAAAGAAGCATTGTTCTCATG
TATCTATATCTCGTGTGACTTTTAATGAGACTTTGAATGTTTATTGATCACTGGTACTTG
AATGAACATTTATAAATGTAAATGTAATTATTGTAATCACTGGTTACGAATGTTTTATAA
CGTCCATATGTATTACTTTTCAATGATCAAAATGTAGTTTGCTTTTTCATTTCTTAATGA
ATGTTCGGGATTTTTATTTTCTACTTTTATGAAGATAAGCCCCAGGTCTTACTGTATCCC
TTATAATCTGAATTTGTTTGCACTGGTTCATTTTTAAAGACAATTCTTAAAAATTTTCCC
TCCCCTATGATCATCACTGGTAACAGCTTTTTCTATAGTCATTGTAAAATCGCTGCTACT
AAGAGATCATGATGCAGGGGGAAATTATTGGAGATCAAATATGTAGTCATTTCAAATATA
AAATCCAGTTTACTCATGGATTTTAGCTATTTTTTCACTGGGTAAATTATAATTATATTA
CATTTATTTATAAGTGAGTTTATGCATTTTCATGCCTCTTAATAAATGCATTGTTTTCCC

Predicted RNA structure(s): 3 entry(ies)

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Predicted RNA structure(s): 3 entry(ies)

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               1-119, - strand, RNAz p=0.721255
               

               
               199-310, + strand, RNAz p=0.999737
               

               
               829-946, - strand, RNAz p=0.826216

Predicted RNA structure(s): 3 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


               
               1-119, - strand, RNAz p=0.721255
               

               
               199-310, + strand, RNAz p=0.999737
               

               
               829-946, - strand, RNAz p=0.826216

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               199-310, DB811712 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB811712.1|), blast E-value=0, identity=100% 
               

               
               199-306, EST13265 human nasopharynx Homo sapiens cDNA, mRNA sequence 
(gb|CD696742.1|), blast E-value=1e-16, identity=85.09% 
               

               
               199-306, AGENCOURT_15338945 Lupski_anterior_horn Homo sapiens cDNA clone 
(gb|CF456754.1|), blast E-value=1e-16, identity=85.09% 
               

               
               219-310, ILLUMIGEN_MCQ_38090 Katze_MMBR Macaca mulatta cDNA clone 
(gb|CN802333.1|), blast E-value=1e-16, identity=86.73% 
               

               
               219-310, ILLUMIGEN_MCQ_31969 Katze_MMBR Macaca mulatta cDNA clone 
(gb|CN803001.1|), blast E-value=1e-16, identity=86.73% 
               

               
               219-310, ILLUMIGEN_MCQ_32908 Katze_MMBR Macaca mulatta cDNA clone 
(gb|CN803387.1|), blast E-value=1e-16, identity=86.73%

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


               
               199-310, DB811712 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB811712.1|), blast E-value=0, identity=100% 
               

               
               199-306, EST13265 human nasopharynx Homo sapiens cDNA, mRNA sequence 
(gb|CD696742.1|), blast E-value=1e-16, identity=85.09% 
               

               
               199-306, AGENCOURT_15338945 Lupski_anterior_horn Homo sapiens cDNA clone 
(gb|CF456754.1|), blast E-value=1e-16, identity=85.09% 
               

               
               219-310, ILLUMIGEN_MCQ_38090 Katze_MMBR Macaca mulatta cDNA clone 
(gb|CN802333.1|), blast E-value=1e-16, identity=86.73% 
               

               
               219-310, ILLUMIGEN_MCQ_31969 Katze_MMBR Macaca mulatta cDNA clone 
(gb|CN803001.1|), blast E-value=1e-16, identity=86.73% 
               

               
               219-310, ILLUMIGEN_MCQ_32908 Katze_MMBR Macaca mulatta cDNA clone 
(gb|CN803387.1|), blast E-value=1e-16, identity=86.73%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of NM_004842, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of NM_004842, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1080, gnl|bosTau2|chr9 (39733555-39734654)
               

               
               1-1080, gnl|Hg17|chr6 (131645280-131646363)
               

               
               1-1080, gnl|Mm7|chr10 (24922300-24921041)

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


               
               1-1080, gnl|bosTau2|chr9 (39733555-39734654)
               

               
               1-1080, gnl|Hg17|chr6 (131645280-131646363)
               

               
               1-1080, gnl|Mm7|chr10 (24922300-24921041)

Expressed library(ies): 8 entry(ies)

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Expressed library(ies): 8 entry(ies)

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               liv (0.292569)
               

               
               fce (0.271592)
               

               
               fty (0.17584)
               

               
               bfe (0.149858)
               

               
               lin (0.145603)
               

               
               nmm (0.132802)
               

               
               ova (0.129132)
               

               
               eje (0.0988338)

Expressed library(ies): 8 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


               
               liv (0.292569)
               

               
               fce (0.271592)
               

               
               fty (0.17584)
               

               
               bfe (0.149858)
               

               
               lin (0.145603)
               

               
               nmm (0.132802)
               

               
               ova (0.129132)
               

               
               eje (0.0988338)

	1-119, - strand, RNAz p=0.721255
	199-310, + strand, RNAz p=0.999737
	829-946, - strand, RNAz p=0.826216

	199-310, DB811712 full-length enriched swine cDNA library, adult ovary Sus (dbj\|DB811712.1\|), blast E-value=0, identity=100%
	199-306, EST13265 human nasopharynx Homo sapiens cDNA, mRNA sequence (gb\|CD696742.1\|), blast E-value=1e-16, identity=85.09%
	199-306, AGENCOURT_15338945 Lupski_anterior_horn Homo sapiens cDNA clone (gb\|CF456754.1\|), blast E-value=1e-16, identity=85.09%
	219-310, ILLUMIGEN_MCQ_38090 Katze_MMBR Macaca mulatta cDNA clone (gb\|CN802333.1\|), blast E-value=1e-16, identity=86.73%
	219-310, ILLUMIGEN_MCQ_31969 Katze_MMBR Macaca mulatta cDNA clone (gb\|CN803001.1\|), blast E-value=1e-16, identity=86.73%
	219-310, ILLUMIGEN_MCQ_32908 Katze_MMBR Macaca mulatta cDNA clone (gb\|CN803387.1\|), blast E-value=1e-16, identity=86.73%

	1-1080, gnl\|bosTau2\|chr9 (39733555-39734654)
	1-1080, gnl\|Hg17\|chr6 (131645280-131646363)
	1-1080, gnl\|Mm7\|chr10 (24922300-24921041)

	liv (0.292569)
	fce (0.271592)
	fty (0.17584)
	bfe (0.149858)
	lin (0.145603)
	nmm (0.132802)
	ova (0.129132)
	eje (0.0988338)