Non-Coding RNA Search

Ss1.1-rton1209b_g9.5

Sequence:


               
               ACGAAGCAACCTTAACTGAAATGAGGATACTGTACAAGAAAATCTACAGATTGTCGAGAT
GGAGAAAATAGTAGAGTTTTGCAGACGAGCTGTAGGTCATACATGAATGTCTGGTGAGAC
ATTCAAACTTCGTATAGGGTGCAGAGCAATTCCTTATCTTGAGGAGCTGTCCAGTGTATT
GCAAGATACTCAGCATCCTTGGCTCTCACACACTAAAATGCGCCCGCCTCCCCCCCCCCC
ATTATGGTGGCAACCACAACCCTGTCAGATCTATTCACCTTTTTCCGAGCAGATATTTTG
TAACATCTCCTTGGCTGTGCTGAGATGATTCATCAATATTACAATCTTTATGAATTTCTT
AGGAAATCAATTTAGTGTCCTATTATAATGGAGAAACAGAAGAAAAGAAATTTGTAATAA
ACTAAGTATCAACATGTAAATGCTCTGGCATAACTACGCTATATGACATCATGAAATAGA
CATTTATTCCTAGTTATAGTGAATAGGTTTGGGTTTAAGAGTCGGTCAGAGGCTACTGCC
TATAACAAAGTACAGGAAAAGGAAAGAGTAGAGTTACGGATGACACCAGAATGAAAATTA
GTCTTGGAGTAAGAAATCTTACCTGTATGTAGTAAGGGCAAGAGCGAAGTTACCTTGATT
GGAAGAAGAATAAAAGGACAGATTAGAGATTGTCTAAGAGGAAAAAGTGAATTACATTCT
CGCAGGCGAGCTGTAGGTCCTACATAAGTGTCCATTAGGACATTAGAAAGTCGTATAAGG
TACAGGATAACTCTTCGTTGTGTGGGACTAACCCATACACTGCAGGACATCTGTTATCCT
GGCAGCATCCACTCAATGCCAGTAAAAGTCCGCAATTATGAAAACAACAACCCACCAATT
TCCAAGATAGAAGAGAGAGGACCACTGCCTTAGTTAAGCCCTAGCATCTTTAGATTAGCT
TGTTACCTCCCTAAGGAGTCCTCCTATAGAGAACTTTGGATGCTTGCCTCCCAGATCCCC
AGTTTTAAAAATACTTTGCGACTCGCTTTGTTTGTTTTTAGCATCTATCCAACTTGGTGT
TGTCTGTTTTCCTCATTCGAATGTGAGTTCCCTAAGAGTCAGCCTGTCTTGTTCACTGTG
CCACCCCCGATAGCCAGCTGAGTGCTTGATACGCTGATACATTGGATGAATGTTGTTCAA
TAAAGCTCAACTTTCTATAATTCAGTAGTGGAATTGTATTCTTGTTCTTCTGCAAGTTCA
ATGTGTGATTAC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ACGAAGCAACCTTAACTGAAATGAGGATACTGTACAAGAAAATCTACAGATTGTCGAGAT
GGAGAAAATAGTAGAGTTTTGCAGACGAGCTGTAGGTCATACATGAATGTCTGGTGAGAC
ATTCAAACTTCGTATAGGGTGCAGAGCAATTCCTTATCTTGAGGAGCTGTCCAGTGTATT
GCAAGATACTCAGCATCCTTGGCTCTCACACACTAAAATGCGCCCGCCTCCCCCCCCCCC
ATTATGGTGGCAACCACAACCCTGTCAGATCTATTCACCTTTTTCCGAGCAGATATTTTG
TAACATCTCCTTGGCTGTGCTGAGATGATTCATCAATATTACAATCTTTATGAATTTCTT
AGGAAATCAATTTAGTGTCCTATTATAATGGAGAAACAGAAGAAAAGAAATTTGTAATAA
ACTAAGTATCAACATGTAAATGCTCTGGCATAACTACGCTATATGACATCATGAAATAGA
CATTTATTCCTAGTTATAGTGAATAGGTTTGGGTTTAAGAGTCGGTCAGAGGCTACTGCC
TATAACAAAGTACAGGAAAAGGAAAGAGTAGAGTTACGGATGACACCAGAATGAAAATTA
GTCTTGGAGTAAGAAATCTTACCTGTATGTAGTAAGGGCAAGAGCGAAGTTACCTTGATT
GGAAGAAGAATAAAAGGACAGATTAGAGATTGTCTAAGAGGAAAAAGTGAATTACATTCT
CGCAGGCGAGCTGTAGGTCCTACATAAGTGTCCATTAGGACATTAGAAAGTCGTATAAGG
TACAGGATAACTCTTCGTTGTGTGGGACTAACCCATACACTGCAGGACATCTGTTATCCT
GGCAGCATCCACTCAATGCCAGTAAAAGTCCGCAATTATGAAAACAACAACCCACCAATT
TCCAAGATAGAAGAGAGAGGACCACTGCCTTAGTTAAGCCCTAGCATCTTTAGATTAGCT
TGTTACCTCCCTAAGGAGTCCTCCTATAGAGAACTTTGGATGCTTGCCTCCCAGATCCCC
AGTTTTAAAAATACTTTGCGACTCGCTTTGTTTGTTTTTAGCATCTATCCAACTTGGTGT
TGTCTGTTTTCCTCATTCGAATGTGAGTTCCCTAAGAGTCAGCCTGTCTTGTTCACTGTG
CCACCCCCGATAGCCAGCTGAGTGCTTGATACGCTGATACATTGGATGAATGTTGTTCAA
TAAAGCTCAACTTTCTATAATTCAGTAGTGGAATTGTATTCTTGTTCTTCTGCAAGTTCA
ATGTGTGATTAC

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

More info

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

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               36-186, - strand, RNAz p=0.950441
               

               
               656-884, + strand, RNAz p=0.999999

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


               
               36-186, - strand, RNAz p=0.950441
               

               
               656-884, + strand, RNAz p=0.999999

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               729-855, BP425239 Homo sapiens small intestine Homo sapiens cDNA clone 
(dbj|BP425239.1|), blast E-value=5e-24, identity=88.28% 
               

               
               729-860, MMSP0026_H05 MMSP Macaca mulatta cDNA, mRNA sequence (gb|CB555416.1|), 
blast E-value=5e-27, identity=88.72% 
               

               
               694-862, EST00407 Feline cDNA, uterus library Felis catus cDNA clone E0188 
(gb|DN828344.1|), blast E-value=5e-30, identity=86.47% 
               

               
               729-855, nbj32c01.y1 Human optic nerve. Unnormalized (nbj) Homo sapiens cDNA 
(gb|EB387555.1|), blast E-value=5e-24, identity=88.28% 
               

               
               729-860, 294718 Pigtailed macaque ovary library Macaca nemestrina cDNA 5', 
(gb|EB521056.1|), blast E-value=8e-29, identity=87.88% 
               

               
               729-860, 294719 Pigtailed macaque ovary library Macaca nemestrina cDNA 3', 
(gb|EB521057.1|), blast E-value=5e-27, identity=88.72%

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


               
               729-855, BP425239 Homo sapiens small intestine Homo sapiens cDNA clone 
(dbj|BP425239.1|), blast E-value=5e-24, identity=88.28% 
               

               
               729-860, MMSP0026_H05 MMSP Macaca mulatta cDNA, mRNA sequence (gb|CB555416.1|), 
blast E-value=5e-27, identity=88.72% 
               

               
               694-862, EST00407 Feline cDNA, uterus library Felis catus cDNA clone E0188 
(gb|DN828344.1|), blast E-value=5e-30, identity=86.47% 
               

               
               729-855, nbj32c01.y1 Human optic nerve. Unnormalized (nbj) Homo sapiens cDNA 
(gb|EB387555.1|), blast E-value=5e-24, identity=88.28% 
               

               
               729-860, 294718 Pigtailed macaque ovary library Macaca nemestrina cDNA 5', 
(gb|EB521056.1|), blast E-value=8e-29, identity=87.88% 
               

               
               729-860, 294719 Pigtailed macaque ovary library Macaca nemestrina cDNA 3', 
(gb|EB521057.1|), blast E-value=5e-27, identity=88.72%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of BX571742, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of BX571742, +

Aligned organism(s): 2 entry(ies)

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Aligned organism(s): 2 entry(ies)

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               36-1270, gnl|bosTau2|chr4 (60095523-60096799)
               

               
               36-1270, gnl|Hg17|chr7 (138186842-138185542)

Aligned organism(s): 2 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


               
               36-1270, gnl|bosTau2|chr4 (60095523-60096799)
               

               
               36-1270, gnl|Hg17|chr7 (138186842-138185542)

Expressed library(ies): 18 entry(ies)

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Expressed library(ies): 18 entry(ies)

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               cty (0.41632)
               

               
               cbl (0.344392)
               

               
               bla (0.248694)
               

               
               col (0.195008)
               

               
               cmu (0.186393)
               

               
               fty (0.17584)
               

               
               ton (0.1755)
               

               
               nje (0.16592)
               

               
               csp (0.161186)
               

               
               liv (0.146284)
               

               
               lin (0.145603)
               

               
               hyp (0.142837)
               

               
               hlv (0.139256)
               

               
               pla (0.133672)
               

               
               lyg (0.133103)
               

               
               ova (0.129132)
               

               
               thg (0.126791)
               

               
               clu (0.119646)

Expressed library(ies): 18 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


               
               cty (0.41632)
               

               
               cbl (0.344392)
               

               
               bla (0.248694)
               

               
               col (0.195008)
               

               
               cmu (0.186393)
               

               
               fty (0.17584)
               

               
               ton (0.1755)
               

               
               nje (0.16592)
               

               
               csp (0.161186)
               

               
               liv (0.146284)
               

               
               lin (0.145603)
               

               
               hyp (0.142837)
               

               
               hlv (0.139256)
               

               
               pla (0.133672)
               

               
               lyg (0.133103)
               

               
               ova (0.129132)
               

               
               thg (0.126791)
               

               
               clu (0.119646)

	36-186, - strand, RNAz p=0.950441
	656-884, + strand, RNAz p=0.999999

	729-855, BP425239 Homo sapiens small intestine Homo sapiens cDNA clone (dbj\|BP425239.1\|), blast E-value=5e-24, identity=88.28%
	729-860, MMSP0026_H05 MMSP Macaca mulatta cDNA, mRNA sequence (gb\|CB555416.1\|), blast E-value=5e-27, identity=88.72%
	694-862, EST00407 Feline cDNA, uterus library Felis catus cDNA clone E0188 (gb\|DN828344.1\|), blast E-value=5e-30, identity=86.47%
	729-855, nbj32c01.y1 Human optic nerve. Unnormalized (nbj) Homo sapiens cDNA (gb\|EB387555.1\|), blast E-value=5e-24, identity=88.28%
	729-860, 294718 Pigtailed macaque ovary library Macaca nemestrina cDNA 5', (gb\|EB521056.1\|), blast E-value=8e-29, identity=87.88%
	729-860, 294719 Pigtailed macaque ovary library Macaca nemestrina cDNA 3', (gb\|EB521057.1\|), blast E-value=5e-27, identity=88.72%

	36-1270, gnl\|bosTau2\|chr4 (60095523-60096799)
	36-1270, gnl\|Hg17\|chr7 (138186842-138185542)

	cty (0.41632)
	cbl (0.344392)
	bla (0.248694)
	col (0.195008)
	cmu (0.186393)
	fty (0.17584)
	ton (0.1755)
	nje (0.16592)
	csp (0.161186)
	liv (0.146284)
	lin (0.145603)
	hyp (0.142837)
	hlv (0.139256)
	pla (0.133672)
	lyg (0.133103)
	ova (0.129132)
	thg (0.126791)
	clu (0.119646)