Non-Coding RNA Search

Ss1.1-Pig3-SRG8011O13.3

Sequence:


               
               GGGGGCCCACAGGTTCGTTCTGTCCTCAGAGAGCAGAGCAGAGTAGGGAGTTATCTCATG
GGGCACTTGGCTCCACTTGATCAGGTAGGGGTGGGCCAGCACGACCCTTCAGATGGAGAA
GCCCATGGGCTGTGGCAAAGCTCACCCCTCTCAGCTCGACAGGAAGTATTGAAGACACGG
ATGGAGGGGAGGGTCTGGCCGGGAGGAGCTTATCTGGCCAGCGGGCCCAGACCTGGCCGC
ATGGATTTCATCCCCTGACCCTCCTTTCCTCTGCTGCTCTGGCGTGTCCTTTCTGCAGCT
GCTTTTCAGCACAGGTGGTTCCACTGTGGGGAGCTGATGCTAAGTGACAGGATGGGAAGC
AAAGGTGCATTCTATTCCAGATCCTTCCTAGTCCGTGTGGGGGCACTCAGCACTCCTAGG
GGCCGGCTGGGTAGGCCCCCCTTGATAGCAGCCCCTGCTATGCTCCTCCGGGAATTTTCA
CCTTTCCTTTTTCAACCTGCGCCACCTATCTGGGTTAGCTGGTTTCCACACTGGCCCCAG
CGGCTCCATGGGGATGGTCCTAGTGCCTCCTTCCACCGCAGTGTGGCTGTCACCAGGGCC
GCCCTCCCTTGGTCCTTGAGGACAACAGTGGCTTGGGCTTAAGACTGGCAGGGAACCTTG
CTTTCAGTTGCTTTTCCTCTACCCAGAAGTGAGGCTGACCCCCTCCCAGGACAAAAGCTA
GGAACAGGGGATGTGGGCTGAGAGCTCTCTCTCACCGTCTTCTCCCTGTAGCTATAACCC
CTTTCCTACCTTGCCCTTTGGGTAACGGAGAGCTGCTGTTGGGCATGTCTTGCTCCTGAC
CAGTGAGGTGGGGAAAGAGGACGGTCAGGAAGCACTGCTATGCTCAGAGCTCCTGACTCA
ACCCCCTGGGGAACCAAGAACCAGGACCAGGCCAAAGCTTACAGGATGCCAGGCCCTGGC
AGCAGCCTCAGAGCTGCTGGAGGTGGGAGGGTGCCCACCTTCTGGATCTCTGGGCCAGCC
CTCCTTGTGGTACTTGAGCTCCTTATCTTCAGTTAGAATCCTCCGAGCTGGTTTCCCCAC
AAGGAGGGTGGGACGGAGTACAAAGGAGAAGGGCGGGTCTCGGGAAGAGGCAGCCCTTCT
TTGGCCTCTGGGGCAGATGAGCTTGACCTAGTGCACATGGAGACCAAAAGCCTCTGATTT
TTACTTTCCATAAAAATGTTAGAGAAGTATGTATATATACATACATATATATATATATTT
CTTTAAATTTCTGAGTCTTTGATATGTCTATATAAGCAATTCATTCCCTCTCCCCTGAAG
CTGGAGTGAGACACATGGAAGAACTCTGTGTGGGTTTCATTTGAAGGTGTTAAATAATTA
AATGATTAAAACTTGAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGGGGCCCACAGGTTCGTTCTGTCCTCAGAGAGCAGAGCAGAGTAGGGAGTTATCTCATG
GGGCACTTGGCTCCACTTGATCAGGTAGGGGTGGGCCAGCACGACCCTTCAGATGGAGAA
GCCCATGGGCTGTGGCAAAGCTCACCCCTCTCAGCTCGACAGGAAGTATTGAAGACACGG
ATGGAGGGGAGGGTCTGGCCGGGAGGAGCTTATCTGGCCAGCGGGCCCAGACCTGGCCGC
ATGGATTTCATCCCCTGACCCTCCTTTCCTCTGCTGCTCTGGCGTGTCCTTTCTGCAGCT
GCTTTTCAGCACAGGTGGTTCCACTGTGGGGAGCTGATGCTAAGTGACAGGATGGGAAGC
AAAGGTGCATTCTATTCCAGATCCTTCCTAGTCCGTGTGGGGGCACTCAGCACTCCTAGG
GGCCGGCTGGGTAGGCCCCCCTTGATAGCAGCCCCTGCTATGCTCCTCCGGGAATTTTCA
CCTTTCCTTTTTCAACCTGCGCCACCTATCTGGGTTAGCTGGTTTCCACACTGGCCCCAG
CGGCTCCATGGGGATGGTCCTAGTGCCTCCTTCCACCGCAGTGTGGCTGTCACCAGGGCC
GCCCTCCCTTGGTCCTTGAGGACAACAGTGGCTTGGGCTTAAGACTGGCAGGGAACCTTG
CTTTCAGTTGCTTTTCCTCTACCCAGAAGTGAGGCTGACCCCCTCCCAGGACAAAAGCTA
GGAACAGGGGATGTGGGCTGAGAGCTCTCTCTCACCGTCTTCTCCCTGTAGCTATAACCC
CTTTCCTACCTTGCCCTTTGGGTAACGGAGAGCTGCTGTTGGGCATGTCTTGCTCCTGAC
CAGTGAGGTGGGGAAAGAGGACGGTCAGGAAGCACTGCTATGCTCAGAGCTCCTGACTCA
ACCCCCTGGGGAACCAAGAACCAGGACCAGGCCAAAGCTTACAGGATGCCAGGCCCTGGC
AGCAGCCTCAGAGCTGCTGGAGGTGGGAGGGTGCCCACCTTCTGGATCTCTGGGCCAGCC
CTCCTTGTGGTACTTGAGCTCCTTATCTTCAGTTAGAATCCTCCGAGCTGGTTTCCCCAC
AAGGAGGGTGGGACGGAGTACAAAGGAGAAGGGCGGGTCTCGGGAAGAGGCAGCCCTTCT
TTGGCCTCTGGGGCAGATGAGCTTGACCTAGTGCACATGGAGACCAAAAGCCTCTGATTT
TTACTTTCCATAAAAATGTTAGAGAAGTATGTATATATACATACATATATATATATATTT
CTTTAAATTTCTGAGTCTTTGATATGTCTATATAAGCAATTCATTCCCTCTCCCCTGAAG
CTGGAGTGAGACACATGGAAGAACTCTGTGTGGGTTTCATTTGAAGGTGTTAAATAATTA
AATGATTAAAACTTGAAAAAAAAAAAAAAAAAAAAA

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

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

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               488-641, - strand, RNAz p=0.999965
               

               
               918-1195, - strand, RNAz p=0.9993

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


               
               488-641, - strand, RNAz p=0.999965
               

               
               918-1195, - strand, RNAz p=0.9993

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               572-675, - strand, RNAmicro p=0.98

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


               
               572-675, - strand, RNAmicro p=0.98

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               1039-1195, AJ673488 KN224 Bos taurus cDNA clone KN224-012_F18, mRNA sequence 
(emb|AJ673488.1|), blast E-value=4e-22, identity=85.35% 
               

               
               1039-1195, 602833 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB427265.1|), 
blast E-value=4e-22, identity=85.35% 
               

               
               1039-1195, 603217 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB427628.1|), 
blast E-value=4e-22, identity=85.35% 
               

               
               1039-1195, 723359 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB463005.1|), 
blast E-value=4e-22, identity=85.35% 
               

               
               1039-1195, 725663 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB464452.1|), 
blast E-value=4e-22, identity=85.35% 
               

               
               1039-1195, LB0134.CR_K23 GC_BGC-13 Bos taurus cDNA clone IMAGE (gb|DT722488.1|), 
blast E-value=4e-22, identity=85.35%

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


               
               1039-1195, AJ673488 KN224 Bos taurus cDNA clone KN224-012_F18, mRNA sequence 
(emb|AJ673488.1|), blast E-value=4e-22, identity=85.35% 
               

               
               1039-1195, 602833 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB427265.1|), 
blast E-value=4e-22, identity=85.35% 
               

               
               1039-1195, 603217 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB427628.1|), 
blast E-value=4e-22, identity=85.35% 
               

               
               1039-1195, 723359 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB463005.1|), 
blast E-value=4e-22, identity=85.35% 
               

               
               1039-1195, 725663 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB464452.1|), 
blast E-value=4e-22, identity=85.35% 
               

               
               1039-1195, LB0134.CR_K23 GC_BGC-13 Bos taurus cDNA clone IMAGE (gb|DT722488.1|), 
blast E-value=4e-22, identity=85.35%

Aligned organism(s): 2 entry(ies)

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Aligned organism(s): 2 entry(ies)

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               1-1395, gnl|bosTau2|chr2 (74058140-74059500)
               

               
               1-1395, gnl|Hg17|chr1 (32908350-32909664)

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


               
               1-1395, gnl|bosTau2|chr2 (74058140-74059500)
               

               
               1-1395, gnl|Hg17|chr1 (32908350-32909664)

Expressed library(ies): 14 entry(ies)

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Expressed library(ies): 14 entry(ies)

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               pro (0.512033)
               

               
               amn (0.417711)
               

               
               cje (0.330469)
               

               
               col (0.195008)
               

               
               nep (0.183925)
               

               
               pty (0.142714)
               

               
               cst (0.140036)
               

               
               pla (0.133672)
               

               
               lyg (0.133103)
               

               
               ute (0.132784)
               

               
               cov (0.132153)
               

               
               cbr (0.127975)
               

               
               eru (0.120048)
               

               
               jej (0.0989218)

Expressed library(ies): 14 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


               
               pro (0.512033)
               

               
               amn (0.417711)
               

               
               cje (0.330469)
               

               
               col (0.195008)
               

               
               nep (0.183925)
               

               
               pty (0.142714)
               

               
               cst (0.140036)
               

               
               pla (0.133672)
               

               
               lyg (0.133103)
               

               
               ute (0.132784)
               

               
               cov (0.132153)
               

               
               cbr (0.127975)
               

               
               eru (0.120048)
               

               
               jej (0.0989218)

	488-641, - strand, RNAz p=0.999965
	918-1195, - strand, RNAz p=0.9993

	1039-1195, AJ673488 KN224 Bos taurus cDNA clone KN224-012_F18, mRNA sequence (emb\|AJ673488.1\|), blast E-value=4e-22, identity=85.35%
	1039-1195, 602833 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb\|CB427265.1\|), blast E-value=4e-22, identity=85.35%
	1039-1195, 603217 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB427628.1\|), blast E-value=4e-22, identity=85.35%
	1039-1195, 723359 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb\|CB463005.1\|), blast E-value=4e-22, identity=85.35%
	1039-1195, 725663 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB464452.1\|), blast E-value=4e-22, identity=85.35%
	1039-1195, LB0134.CR_K23 GC_BGC-13 Bos taurus cDNA clone IMAGE (gb\|DT722488.1\|), blast E-value=4e-22, identity=85.35%

	1-1395, gnl\|bosTau2\|chr2 (74058140-74059500)
	1-1395, gnl\|Hg17\|chr1 (32908350-32909664)

	pro (0.512033)
	amn (0.417711)
	cje (0.330469)
	col (0.195008)
	nep (0.183925)
	pty (0.142714)
	cst (0.140036)
	pla (0.133672)
	lyg (0.133103)
	ute (0.132784)
	cov (0.132153)
	cbr (0.127975)
	eru (0.120048)
	jej (0.0989218)