Non-Coding RNA Search

Ss1.1-Lym2-sn02_A01.f.5

Sequence:


               
               CAGCCAGCTGCCACAGATGCCCCCAACGGAGACCTCACGCCTGAGATGATCCTCAGCATG
ATGGACCGGTGATGGCGGGGCCTCGCTCATTGCCAGGACTGCTCTGGGCTGTGTTTAAAC
GGCCCGCATCTTAATTTTTCTCCCTTTCTTCTTTTGGCTTTGGGAAAAGCATCATTTTAC
CAAACATACTGAGAGCTAAAACTTCAAGGATGATGTTAGAAAAATGTGATTTAACTAGAA
CTTGCTGTTTGATGTTAGCAAATCATGGAGTGTTCTGAGTCCCTGAGGGTTTACTGTGAA
GTGCTGAGGACAGTGTTGACGCCTAACTGGTTTTCTTGGATGGAAACACAGACATTGAAC
CCTCTCTCTTGCTATGGTAAACCACTCCAGAAACCACCACCGGGTTTCCCAGAGTTCTAT
GGTCTTCTTCCCAGGAGTTTTTAATTGTAAATGCGGACTTGGGAAAGACTTAGACTTTTA
AACTGGTTTTTGCTTTTGCTTTTCCCTGACTCCCTTTGCTTGGAGTCAGCTGCACACCAG
TAGTATGGCATGCTACGGTCGGTTTCTGTCCTAAAGGCTTTGCCTCTTTCTTGGCAAAGT
TTCTGGTATGGTCAAGCTTGTAAATAACTTTTTTTACATTTTAATCTTTTCCATTAATTA
AGAGGTTGAAAAGAAGTGCAGTGTAAGAAAACCCAGCATTTTAATTACTTGCAAATTAAG
TTACCACAGACTATAATATATAAATGTTGACAAGGAATTGGATCACAATCATGTAGCAGA
ACGGCACCCAGACTGCTGCCTGCTAGTGACAGACATCCACTTGGAAGATCGTGATTTCCA
GCCCGTGGAGCCAGCATTTGAACCTTGTACAATTAACTTTGAGTTATGATTTCCCATCTA
CATTTTCTTTGCTTTGTTTCTAGCTGAATTTTGTGTTTTATAAATCCTCTATTAAAGCAG
AAGGGTGATTATGAGTGGGTCACAGCAGCCCTTAAAAGCTGGGCCAGAAAATTTCACTAG
GTCAGTAATTTAAACTTTGGATCTTCAAAAAATAATAATGTGAAGCAAAACCAACTAAAG
TGATTCTTGCACATGAACTGTCACATGTTAAAAATGTGTTTTTTAGAGAGCCTCAGTCTT
GCTGATTTCAGACACTTTTTTCTTCTGTGTATTGCTTTTAAGAGAGCCATCAGTTAGCTA
TCAGACTTTAGGTTGATGCATTTTGTACTTAGCTGTACTGTGTGATATTTTTCATTATTT
TAGGACGCCAACACGAGACCTGTAATAAAATATGTAATGGGGTTGAAAGCTGGGGAGGAG
GATCTACTGCTGTACAGCTAATAAATCATAACGGATTAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CAGCCAGCTGCCACAGATGCCCCCAACGGAGACCTCACGCCTGAGATGATCCTCAGCATG
ATGGACCGGTGATGGCGGGGCCTCGCTCATTGCCAGGACTGCTCTGGGCTGTGTTTAAAC
GGCCCGCATCTTAATTTTTCTCCCTTTCTTCTTTTGGCTTTGGGAAAAGCATCATTTTAC
CAAACATACTGAGAGCTAAAACTTCAAGGATGATGTTAGAAAAATGTGATTTAACTAGAA
CTTGCTGTTTGATGTTAGCAAATCATGGAGTGTTCTGAGTCCCTGAGGGTTTACTGTGAA
GTGCTGAGGACAGTGTTGACGCCTAACTGGTTTTCTTGGATGGAAACACAGACATTGAAC
CCTCTCTCTTGCTATGGTAAACCACTCCAGAAACCACCACCGGGTTTCCCAGAGTTCTAT
GGTCTTCTTCCCAGGAGTTTTTAATTGTAAATGCGGACTTGGGAAAGACTTAGACTTTTA
AACTGGTTTTTGCTTTTGCTTTTCCCTGACTCCCTTTGCTTGGAGTCAGCTGCACACCAG
TAGTATGGCATGCTACGGTCGGTTTCTGTCCTAAAGGCTTTGCCTCTTTCTTGGCAAAGT
TTCTGGTATGGTCAAGCTTGTAAATAACTTTTTTTACATTTTAATCTTTTCCATTAATTA
AGAGGTTGAAAAGAAGTGCAGTGTAAGAAAACCCAGCATTTTAATTACTTGCAAATTAAG
TTACCACAGACTATAATATATAAATGTTGACAAGGAATTGGATCACAATCATGTAGCAGA
ACGGCACCCAGACTGCTGCCTGCTAGTGACAGACATCCACTTGGAAGATCGTGATTTCCA
GCCCGTGGAGCCAGCATTTGAACCTTGTACAATTAACTTTGAGTTATGATTTCCCATCTA
CATTTTCTTTGCTTTGTTTCTAGCTGAATTTTGTGTTTTATAAATCCTCTATTAAAGCAG
AAGGGTGATTATGAGTGGGTCACAGCAGCCCTTAAAAGCTGGGCCAGAAAATTTCACTAG
GTCAGTAATTTAAACTTTGGATCTTCAAAAAATAATAATGTGAAGCAAAACCAACTAAAG
TGATTCTTGCACATGAACTGTCACATGTTAAAAATGTGTTTTTTAGAGAGCCTCAGTCTT
GCTGATTTCAGACACTTTTTTCTTCTGTGTATTGCTTTTAAGAGAGCCATCAGTTAGCTA
TCAGACTTTAGGTTGATGCATTTTGTACTTAGCTGTACTGTGTGATATTTTTCATTATTT
TAGGACGCCAACACGAGACCTGTAATAAAATATGTAATGGGGTTGAAAGCTGGGGAGGAG
GATCTACTGCTGTACAGCTAATAAATCATAACGGATTAAAAAAAAAAA

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

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

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               40-186, - strand, RNAz p=0.83109
               

               
               385-661, - strand, RNAz p=0.995753
               

               
               899-1014, + strand, RNAz p=0.591613

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


               
               40-186, - strand, RNAz p=0.83109
               

               
               385-661, - strand, RNAz p=0.995753
               

               
               899-1014, + strand, RNAz p=0.591613

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               426-497, + strand, RNAmicro p=0.997802
               

               
               648-708, + strand, RNAmicro p=0.953464

Predicted microRNA(s): 2 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


               
               426-497, + strand, RNAmicro p=0.997802
               

               
               648-708, + strand, RNAmicro p=0.953464

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               385-660, 4061782 BARC 8BOV Bos taurus cDNA clone 8BOV_12L24 5', mRNA 
(gb|CK836530.1|), blast E-value=0, identity=93.91% 
               

               
               385-660, 4103380 BARC 9BOV Bos taurus cDNA clone 9BOV24_M03 5', mRNA 
(gb|CK972514.1|), blast E-value=0, identity=93.91% 
               

               
               385-660, 1270991 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN526242.1|), 
blast E-value=0, identity=93.91% 
               

               
               385-660, LB01625.CR_O17 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT814985.1|), 
blast E-value=0, identity=93.91% 
               

               
               385-660, LB0261.CR_H20 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV878300.1|), 
blast E-value=0, identity=93.91% 
               

               
               385-660, LB02973.CR_E24 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE365473.1|), 
blast E-value=0, identity=93.91%

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


               
               385-660, 4061782 BARC 8BOV Bos taurus cDNA clone 8BOV_12L24 5', mRNA 
(gb|CK836530.1|), blast E-value=0, identity=93.91% 
               

               
               385-660, 4103380 BARC 9BOV Bos taurus cDNA clone 9BOV24_M03 5', mRNA 
(gb|CK972514.1|), blast E-value=0, identity=93.91% 
               

               
               385-660, 1270991 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN526242.1|), 
blast E-value=0, identity=93.91% 
               

               
               385-660, LB01625.CR_O17 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT814985.1|), 
blast E-value=0, identity=93.91% 
               

               
               385-660, LB0261.CR_H20 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb|DV878300.1|), 
blast E-value=0, identity=93.91% 
               

               
               385-660, LB02973.CR_E24 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE365473.1|), 
blast E-value=0, identity=93.91%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of NM_006565, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of NM_006565, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1362, gnl|bosTau2|chr18 (15175481-15174116)
               

               
               1-1362, gnl|Hg17|chr16 (66229205-66230577)
               

               
               1-1362, gnl|Mm7|chr8 (104280280-104281651)

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


               
               1-1362, gnl|bosTau2|chr18 (15175481-15174116)
               

               
               1-1362, gnl|Hg17|chr16 (66229205-66230577)
               

               
               1-1362, gnl|Mm7|chr8 (104280280-104281651)

Expressed library(ies): 16 entry(ies)

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Expressed library(ies): 16 entry(ies)

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               spl (0.429553)
               

               
               sme (0.305437)
               

               
               lin (0.291206)
               

               
               fce (0.271592)
               

               
               hea (0.204499)
               

               
               jej (0.197844)
               

               
               ldo (0.194005)
               

               
               sag (0.182715)
               

               
               fat (0.147427)
               

               
               pty (0.142714)
               

               
               lnt (0.142308)
               

               
               hlv (0.139256)
               

               
               nmm (0.132802)
               

               
               bla (0.124347)
               

               
               ebs (0.118301)
               

               
               cty (0.10408)

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)
               

               
               sme (0.305437)
               

               
               lin (0.291206)
               

               
               fce (0.271592)
               

               
               hea (0.204499)
               

               
               jej (0.197844)
               

               
               ldo (0.194005)
               

               
               sag (0.182715)
               

               
               fat (0.147427)
               

               
               pty (0.142714)
               

               
               lnt (0.142308)
               

               
               hlv (0.139256)
               

               
               nmm (0.132802)
               

               
               bla (0.124347)
               

               
               ebs (0.118301)
               

               
               cty (0.10408)

	40-186, - strand, RNAz p=0.83109
	385-661, - strand, RNAz p=0.995753
	899-1014, + strand, RNAz p=0.591613

	426-497, + strand, RNAmicro p=0.997802
	648-708, + strand, RNAmicro p=0.953464

	385-660, 4061782 BARC 8BOV Bos taurus cDNA clone 8BOV_12L24 5', mRNA (gb\|CK836530.1\|), blast E-value=0, identity=93.91%
	385-660, 4103380 BARC 9BOV Bos taurus cDNA clone 9BOV24_M03 5', mRNA (gb\|CK972514.1\|), blast E-value=0, identity=93.91%
	385-660, 1270991 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN526242.1\|), blast E-value=0, identity=93.91%
	385-660, LB01625.CR_O17 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb\|DT814985.1\|), blast E-value=0, identity=93.91%
	385-660, LB0261.CR_H20 GC_BGC-26 Bos taurus cDNA clone IMAGE (gb\|DV878300.1\|), blast E-value=0, identity=93.91%
	385-660, LB02973.CR_E24 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE365473.1\|), blast E-value=0, identity=93.91%

	1-1362, gnl\|bosTau2\|chr18 (15175481-15174116)
	1-1362, gnl\|Hg17\|chr16 (66229205-66230577)
	1-1362, gnl\|Mm7\|chr8 (104280280-104281651)

	spl (0.429553)
	sme (0.305437)
	lin (0.291206)
	fce (0.271592)
	hea (0.204499)
	jej (0.197844)
	ldo (0.194005)
	sag (0.182715)
	fat (0.147427)
	pty (0.142714)
	lnt (0.142308)
	hlv (0.139256)
	nmm (0.132802)
	bla (0.124347)
	ebs (0.118301)
	cty (0.10408)