Non-Coding RNA Search

Ss1.1-rfty523b_o15.5

Sequence:


               
               GACTGAAATATCTCTGAAGGATTCTACACTAGATAACTAGGTTGACATACCTGGAATATA
AAGAGCATTTGAGAAGTTCGTAATGGTTTTCATTTGAAATATTTAGACAGCTGAAAGTTT
TAAATTTTTATAAGCATAGGTTTTGATGTTTAAAACTTGTTTTGAGGGAGAAATCCCCCT
TAGCTTTGTTTAAAAGTGACTAAACATTATTGATAATTGTACTTGTGCAGTATTAACAGC
TACATTATACAGTAAATGTGAGGGAAAGTCCATTTAGGAAATGTTAAAACTGCTTTTCCA
GACATCGGTTGTAGTATATTTTCAATTAGTGTGTGTATGTTAATGCGTAATTGATAGTAG
AAAAAGGTTACATTTTAAAAACTGCTACTTGTATAAACCTTTCCTCTTTCCCAAATACTG
TGGGTTTTGTGCATAGTTTTTACAAATCTTGGATTTACCAGAATGTCTTTTCACCGTTTG
TGGGTTTTGTAGAAGTCAAGCATTTTTATGGTAGATAAAATGTTACTTCTATACAAGTAC
TCACTCCCCCTTTTATCAAAAGTTAATTTTAACCTCAGTCTACATTGTGCTACATTATCC
TGCTGCTTTGTAACAATGTGTGGTCTGTATGCCTTTTTGTATGACAACTAGATATCCAAC
TGACATTGAACTGACAATTCTGCCAGGTACAAAACTCATGTTAACTTTTGAAGGTAATTT
AGTTTTGTGGCTGGGAAATTTGGTGTAATCACATGACTTTCCTGCAGGGAGCAGCAGTAT
GTTTAGGAATGAATCTGGCTTTAGGGTTCAACTATTTAAGATCCTTTACAGACACTAGTA
GCTCCAACTGAAAACTAAATGATAAAAATTTATTTTTGAGAAATGTCTCGAGTTTCTGAA
TTTTTTAAAGAGTCACACTCATTAAAGAAATTACTAAGTATTTTTTTAATTGGAAAAAAG
CAATCCATGATGGTTTTGCAGTAAATAAAAGTAAATACTATATAAAGAAACCAACCTATT
TGAGAACACACCTTTATCAGAAGGGAATTTTTATTTCTATGTCATGTATGTGACAGGATT
GCATAGAGTGTGGAAACAATAGTTACTCTGAGGCAGTACACAAAAGCTTTCTGTATATTC
ATGTATATGGACTTAAATCAGGGTGAACCAACATTAATACAAAATTTAAGGGTAATTGAA
CAGATAGCATTTCTAAGGTATTTTGAATACTAGGTCAGTTGTGGTTTGCAGTAGCTTCAA
AGACTCTTTTCATGTTTGGAAACTAGGAATATGGGAAAAGGTTGAATACCAGTGTTGCAT
GTGACATGCATTGTATGCTTTGACCTCTTGAGTAACTATTTTCATCTATAGATGGAAAGT
TCAAATTATTTTAATAATTGGAGTTTTGCTTTTGAGAGGTCTTAAAATGGAACTAGGACC
CACTGTTTTGAGGGAACTCTTGCTTATTACATTATATCTGTTTGGTCCTTAATACAAGTT
AAATTTGGACAGATTTATTCTAGTTAAGCCATAAGTGTCAACATGTAAACTTGTTTTGAT
TAAAGGATTTTTCTATCAAACTCTACTAGTAAATTACTTCTTTGCCAT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GACTGAAATATCTCTGAAGGATTCTACACTAGATAACTAGGTTGACATACCTGGAATATA
AAGAGCATTTGAGAAGTTCGTAATGGTTTTCATTTGAAATATTTAGACAGCTGAAAGTTT
TAAATTTTTATAAGCATAGGTTTTGATGTTTAAAACTTGTTTTGAGGGAGAAATCCCCCT
TAGCTTTGTTTAAAAGTGACTAAACATTATTGATAATTGTACTTGTGCAGTATTAACAGC
TACATTATACAGTAAATGTGAGGGAAAGTCCATTTAGGAAATGTTAAAACTGCTTTTCCA
GACATCGGTTGTAGTATATTTTCAATTAGTGTGTGTATGTTAATGCGTAATTGATAGTAG
AAAAAGGTTACATTTTAAAAACTGCTACTTGTATAAACCTTTCCTCTTTCCCAAATACTG
TGGGTTTTGTGCATAGTTTTTACAAATCTTGGATTTACCAGAATGTCTTTTCACCGTTTG
TGGGTTTTGTAGAAGTCAAGCATTTTTATGGTAGATAAAATGTTACTTCTATACAAGTAC
TCACTCCCCCTTTTATCAAAAGTTAATTTTAACCTCAGTCTACATTGTGCTACATTATCC
TGCTGCTTTGTAACAATGTGTGGTCTGTATGCCTTTTTGTATGACAACTAGATATCCAAC
TGACATTGAACTGACAATTCTGCCAGGTACAAAACTCATGTTAACTTTTGAAGGTAATTT
AGTTTTGTGGCTGGGAAATTTGGTGTAATCACATGACTTTCCTGCAGGGAGCAGCAGTAT
GTTTAGGAATGAATCTGGCTTTAGGGTTCAACTATTTAAGATCCTTTACAGACACTAGTA
GCTCCAACTGAAAACTAAATGATAAAAATTTATTTTTGAGAAATGTCTCGAGTTTCTGAA
TTTTTTAAAGAGTCACACTCATTAAAGAAATTACTAAGTATTTTTTTAATTGGAAAAAAG
CAATCCATGATGGTTTTGCAGTAAATAAAAGTAAATACTATATAAAGAAACCAACCTATT
TGAGAACACACCTTTATCAGAAGGGAATTTTTATTTCTATGTCATGTATGTGACAGGATT
GCATAGAGTGTGGAAACAATAGTTACTCTGAGGCAGTACACAAAAGCTTTCTGTATATTC
ATGTATATGGACTTAAATCAGGGTGAACCAACATTAATACAAAATTTAAGGGTAATTGAA
CAGATAGCATTTCTAAGGTATTTTGAATACTAGGTCAGTTGTGGTTTGCAGTAGCTTCAA
AGACTCTTTTCATGTTTGGAAACTAGGAATATGGGAAAAGGTTGAATACCAGTGTTGCAT
GTGACATGCATTGTATGCTTTGACCTCTTGAGTAACTATTTTCATCTATAGATGGAAAGT
TCAAATTATTTTAATAATTGGAGTTTTGCTTTTGAGAGGTCTTAAAATGGAACTAGGACC
CACTGTTTTGAGGGAACTCTTGCTTATTACATTATATCTGTTTGGTCCTTAATACAAGTT
AAATTTGGACAGATTTATTCTAGTTAAGCCATAAGTGTCAACATGTAAACTTGTTTTGAT
TAAAGGATTTTTCTATCAAACTCTACTAGTAAATTACTTCTTTGCCAT

Predicted RNA structure(s): 4 entry(ies)

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Predicted RNA structure(s): 4 entry(ies)

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               161-280, - strand, RNAz p=0.781543
               

               
               439-591, + strand, RNAz p=0.682397
               

               
               1055-1201, - strand, RNAz p=0.996411
               

               
               1315-1431, - strand, RNAz p=0.999473

Predicted RNA structure(s): 4 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


               
               161-280, - strand, RNAz p=0.781543
               

               
               439-591, + strand, RNAz p=0.682397
               

               
               1055-1201, - strand, RNAz p=0.996411
               

               
               1315-1431, - strand, RNAz p=0.999473

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               481-545, + strand, RNAmicro p=0.998031

Predicted microRNA(s): 1 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


               
               481-545, + strand, RNAmicro p=0.998031

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               1315-1431, Oa_splbn_09P15_M13reverse Sheep spleen\brain pSport1 library Ovis 
(gb|CN824534.1|), blast E-value=3e-20, identity=87.18% 
               

               
               1315-1431, UMC-pd10en3-016-e08 Endometrium gilt D10 of estrous cycle pd10en 
(gb|CO987454.1|), blast E-value=0, identity=100% 
               

               
               1367-1431, UMC-pd3ov3-008-e04 Oviduct gilt D3 of estrous cycle pd3ov Sus 
(gb|CO990850.1|), blast E-value=6e-25, identity=98.46% 
               

               
               1315-1431, UMC-pd0fol-001-c02 D0 ovarian follicle gilt standing estrus pd0fol 
(gb|CO993414.1|), blast E-value=0, identity=99.15% 
               

               
               1315-1392, POSM0605010_I19F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV899068.1|), blast E-value=4e-35, identity=100% 
               

               
               1315-1431, LB0236.CR_O19 GC_BGC-23 Bos taurus cDNA clone IMAGE (gb|EE251547.1|), 
blast E-value=2e-18, identity=86.44%

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


               
               1315-1431, Oa_splbn_09P15_M13reverse Sheep spleen\brain pSport1 library Ovis 
(gb|CN824534.1|), blast E-value=3e-20, identity=87.18% 
               

               
               1315-1431, UMC-pd10en3-016-e08 Endometrium gilt D10 of estrous cycle pd10en 
(gb|CO987454.1|), blast E-value=0, identity=100% 
               

               
               1367-1431, UMC-pd3ov3-008-e04 Oviduct gilt D3 of estrous cycle pd3ov Sus 
(gb|CO990850.1|), blast E-value=6e-25, identity=98.46% 
               

               
               1315-1431, UMC-pd0fol-001-c02 D0 ovarian follicle gilt standing estrus pd0fol 
(gb|CO993414.1|), blast E-value=0, identity=99.15% 
               

               
               1315-1392, POSM0605010_I19F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV899068.1|), blast E-value=4e-35, identity=100% 
               

               
               1315-1431, LB0236.CR_O19 GC_BGC-23 Bos taurus cDNA clone IMAGE (gb|EE251547.1|), 
blast E-value=2e-18, identity=86.44%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_033222, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_033222, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1608, gnl|bosTau2|chr8 (14273993-14272395)
               

               
               1-1608, gnl|Hg17|chr9 (15455557-15454036)
               


               
               1125-1473, gnl|bosTau2|chr14 (32245523-32245188)

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


               
               1-1608, gnl|bosTau2|chr8 (14273993-14272395)
               

               
               1-1608, gnl|Hg17|chr9 (15455557-15454036)
               


               
               1125-1473, gnl|bosTau2|chr14 (32245523-32245188)

Expressed library(ies): 16 entry(ies)

More info

Expressed library(ies): 16 entry(ies)

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               spl (0.429553)
               

               
               tes (0.415628)
               

               
               ret (0.3862)
               

               
               fat (0.294855)
               

               
               fce (0.271592)
               

               
               fcc (0.197785)
               

               
               fty (0.17584)
               

               
               eye (0.170503)
               

               
               liv (0.146284)
               

               
               lin (0.145603)
               

               
               lnt (0.142308)
               

               
               ssp (0.13552)
               

               
               thg (0.126791)
               

               
               pgl (0.118483)
               

               
               med (0.116252)
               

               
               cbl (0.114797)

Expressed library(ies): 16 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


               
               spl (0.429553)
               

               
               tes (0.415628)
               

               
               ret (0.3862)
               

               
               fat (0.294855)
               

               
               fce (0.271592)
               

               
               fcc (0.197785)
               

               
               fty (0.17584)
               

               
               eye (0.170503)
               

               
               liv (0.146284)
               

               
               lin (0.145603)
               

               
               lnt (0.142308)
               

               
               ssp (0.13552)
               

               
               thg (0.126791)
               

               
               pgl (0.118483)
               

               
               med (0.116252)
               

               
               cbl (0.114797)

	161-280, - strand, RNAz p=0.781543
	439-591, + strand, RNAz p=0.682397
	1055-1201, - strand, RNAz p=0.996411
	1315-1431, - strand, RNAz p=0.999473

	1315-1431, Oa_splbn_09P15_M13reverse Sheep spleen\brain pSport1 library Ovis (gb\|CN824534.1\|), blast E-value=3e-20, identity=87.18%
	1315-1431, UMC-pd10en3-016-e08 Endometrium gilt D10 of estrous cycle pd10en (gb\|CO987454.1\|), blast E-value=0, identity=100%
	1367-1431, UMC-pd3ov3-008-e04 Oviduct gilt D3 of estrous cycle pd3ov Sus (gb\|CO990850.1\|), blast E-value=6e-25, identity=98.46%
	1315-1431, UMC-pd0fol-001-c02 D0 ovarian follicle gilt standing estrus pd0fol (gb\|CO993414.1\|), blast E-value=0, identity=99.15%
	1315-1392, POSM0605010_I19F porcine skeletal muscle cDNA library (PoSM) Sus (gb\|DV899068.1\|), blast E-value=4e-35, identity=100%
	1315-1431, LB0236.CR_O19 GC_BGC-23 Bos taurus cDNA clone IMAGE (gb\|EE251547.1\|), blast E-value=2e-18, identity=86.44%

	1-1608, gnl\|bosTau2\|chr8 (14273993-14272395)
	1-1608, gnl\|Hg17\|chr9 (15455557-15454036)

	1125-1473, gnl\|bosTau2\|chr14 (32245523-32245188)

	spl (0.429553)
	tes (0.415628)
	ret (0.3862)
	fat (0.294855)
	fce (0.271592)
	fcc (0.197785)
	fty (0.17584)
	eye (0.170503)
	liv (0.146284)
	lin (0.145603)
	lnt (0.142308)
	ssp (0.13552)
	thg (0.126791)
	pgl (0.118483)
	med (0.116252)
	cbl (0.114797)