Non-Coding RNA Search

Ss1.1-rpigcb_15937.5

Sequence:


               
               GCTGGATGCAGAAGAAAACTCCGGCTGGTCCTTAGGGACATGGCAGGGCCTTGGGGCCGA
AGGCCACTCTCTCACCTTGTCCTCACGGTCCAGTTTTCCCAGGAATCCCTTAGATGCTGA
GATGGGGATTCCTGGAAATACTGTTCTTGAGGTCATGGCTTACCAGCTGGATGTGCCTCC
TTCCCAGCCCAGGGCGGTCCCCACGCAGCTTCGGCTCGAGCGCAGCAGCAGGTCAAGTGG
AAGGCCACGCGCTGGAGGTAAGAGGCCGGGGACTGTGTTTCTGACCTTTACGTTGCTTTT
CTTTCCATTCCATCCATTTCGTAACATCCTGTGAGACTGGAATGGGAACTTCAAAACTGT
CCTGCTCTTGGGAAATCTGTCCAGGCGCTCAGCTGAGCAGCGGCTGCACCAGGACACCAT
AAGGCACGTGTTCTCTCCGCCGCCCCCTCGCCAGCCCCACACGACTTCCCAGCATGCCAA
GCGGTAGGGGCCACGGTATCAAATCAGCATTACTGACAAATGAATACATGTGCCTAAATC
CACTTAAAAAGCTTTACTATGTTAGTTAGGTAAACTAAAAAACATAACTTTTAGTTCAAT
TTGGAATGGAGACATAGAAAGATTAAAAACCTGTCCGTGAAGATAAAAACAAAAAAGCTC
ACAGTGCCCTCTTGTGGTGGCACCTGCTTCCACCCCCTCCAGGAGCACGGCTCTGCAGAC
ACACACGCAGCGAGATTCCTTTGGCCCCAGTCGCTTTTGAGCCAGTGACCACTGGAGCCC
TGCCCACTCCTCATGAGCTCTGATGCCTCCATCACTCTCAACTTTAACTTGCATCACCTG
CCTTCTCCCTCAAAGCTCCTGAAGGTCAGTGGGACTGGTGAGGCTCAGAGAGGTGAAGTG
ACCAACCCAAGTTCACGCAGATAGCATGAGACAGAGCCAGGACGGATTCCAAGTTCAGTG
GCTTGTGGCAACTCCGTAGCCAAAAGTGAAAAATGCAGAAATAAAAAACAGAAGGAAGAC
CATCTGAATAGACGTAGAAAACACTGACTGACAGAGACCTGAAGTGGTCCGGGTGCAACA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GCTGGATGCAGAAGAAAACTCCGGCTGGTCCTTAGGGACATGGCAGGGCCTTGGGGCCGA
AGGCCACTCTCTCACCTTGTCCTCACGGTCCAGTTTTCCCAGGAATCCCTTAGATGCTGA
GATGGGGATTCCTGGAAATACTGTTCTTGAGGTCATGGCTTACCAGCTGGATGTGCCTCC
TTCCCAGCCCAGGGCGGTCCCCACGCAGCTTCGGCTCGAGCGCAGCAGCAGGTCAAGTGG
AAGGCCACGCGCTGGAGGTAAGAGGCCGGGGACTGTGTTTCTGACCTTTACGTTGCTTTT
CTTTCCATTCCATCCATTTCGTAACATCCTGTGAGACTGGAATGGGAACTTCAAAACTGT
CCTGCTCTTGGGAAATCTGTCCAGGCGCTCAGCTGAGCAGCGGCTGCACCAGGACACCAT
AAGGCACGTGTTCTCTCCGCCGCCCCCTCGCCAGCCCCACACGACTTCCCAGCATGCCAA
GCGGTAGGGGCCACGGTATCAAATCAGCATTACTGACAAATGAATACATGTGCCTAAATC
CACTTAAAAAGCTTTACTATGTTAGTTAGGTAAACTAAAAAACATAACTTTTAGTTCAAT
TTGGAATGGAGACATAGAAAGATTAAAAACCTGTCCGTGAAGATAAAAACAAAAAAGCTC
ACAGTGCCCTCTTGTGGTGGCACCTGCTTCCACCCCCTCCAGGAGCACGGCTCTGCAGAC
ACACACGCAGCGAGATTCCTTTGGCCCCAGTCGCTTTTGAGCCAGTGACCACTGGAGCCC
TGCCCACTCCTCATGAGCTCTGATGCCTCCATCACTCTCAACTTTAACTTGCATCACCTG
CCTTCTCCCTCAAAGCTCCTGAAGGTCAGTGGGACTGGTGAGGCTCAGAGAGGTGAAGTG
ACCAACCCAAGTTCACGCAGATAGCATGAGACAGAGCCAGGACGGATTCCAAGTTCAGTG
GCTTGTGGCAACTCCGTAGCCAAAAGTGAAAAATGCAGAAATAAAAAACAGAAGGAAGAC
CATCTGAATAGACGTAGAAAACACTGACTGACAGAGACCTGAAGTGGTCCGGGTGCAACA

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

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

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               40-196, - strand, RNAz p=0.991543
               

               
               832-946, - strand, RNAz p=0.904326

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


               
               40-196, - strand, RNAz p=0.991543
               

               
               832-946, - strand, RNAz p=0.904326

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               57-189, - strand, RNAmicro p=0.999998
               

               
               56-169, + strand, RNAmicro p=0.999994

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


               
               57-189, - strand, RNAmicro p=0.999998
               

               
               56-169, + strand, RNAmicro p=0.999994

ncRNA annotation: 2 entry(ies)

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               73-158, MI0004756 (bta-mir-145), blast E-value=3.00004e-41
               

               
               73-158, miR-145 (gnl|combinedlit|LIT2162), blast E-value=8.99998e-41

ncRNA annotation: 2 entry(ies)

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PigEST conread start position and end position of sequence/structure similarity to an annotated RNA family,
RNA family (possibly sequence identifier),
blast E-value (sequence sim.) or RaveNnA score (structure sim.)


               
               73-158, MI0004756 (bta-mir-145), blast E-value=3.00004e-41
               

               
               73-158, miR-145 (gnl|combinedlit|LIT2162), blast E-value=8.99998e-41

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               47-191, DA086382 BRACE2 Homo sapiens cDNA clone BRACE2041033 5', mRNA 
(dbj|DA086382.1|), blast E-value=1.4013e-45, identity=91.84% 
               

               
               47-191, DB206584 TRACH2 Homo sapiens cDNA clone TRACH2018950 5', mRNA 
(dbj|DB206584.1|), blast E-value=0, identity=92.52% 
               

               
               47-191, DB262066 UTERU2 Homo sapiens cDNA clone UTERU2019978 5', mRNA 
(dbj|DB262066.1|), blast E-value=0, identity=92.52% 
               

               
               67-186, 601771704F1 NCI_CGAP_Lu29 Mus musculus cDNA clone IMAGE 
(gb|BF163348.1|), blast E-value=2.00386e-43, identity=94.17% 
               

               
               78-167, CH3#084_D06MF Canine heart normalized cDNA Library in pBluescript 
(gb|CF413172.1|), blast E-value=6e-35, identity=96.67% 
               

               
               40-191, 1156976 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN277706.1|), 
blast E-value=0, identity=94.74%

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


               
               47-191, DA086382 BRACE2 Homo sapiens cDNA clone BRACE2041033 5', mRNA 
(dbj|DA086382.1|), blast E-value=1.4013e-45, identity=91.84% 
               

               
               47-191, DB206584 TRACH2 Homo sapiens cDNA clone TRACH2018950 5', mRNA 
(dbj|DB206584.1|), blast E-value=0, identity=92.52% 
               

               
               47-191, DB262066 UTERU2 Homo sapiens cDNA clone UTERU2019978 5', mRNA 
(dbj|DB262066.1|), blast E-value=0, identity=92.52% 
               

               
               67-186, 601771704F1 NCI_CGAP_Lu29 Mus musculus cDNA clone IMAGE 
(gb|BF163348.1|), blast E-value=2.00386e-43, identity=94.17% 
               

               
               78-167, CH3#084_D06MF Canine heart normalized cDNA Library in pBluescript 
(gb|CF413172.1|), blast E-value=6e-35, identity=96.67% 
               

               
               40-191, 1156976 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN277706.1|), 
blast E-value=0, identity=94.74%

Aligned organism(s): 2 entry(ies)

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Aligned organism(s): 2 entry(ies)

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               1-1078, gnl|bosTau2|chr7 (42137831-42136768)
               

               
               1-1078, gnl|Hg17|chr5 (148790330-148791965)

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


               
               1-1078, gnl|bosTau2|chr7 (42137831-42136768)
               

               
               1-1078, gnl|Hg17|chr5 (148790330-148791965)

Expressed library(ies): 5 entry(ies)

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Expressed library(ies): 5 entry(ies)

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               nje (0.49776)
               

               
               ton (0.1755)
               

               
               nco (0.161734)
               

               
               pla (0.133672)
               

               
               cty (0.10408)

Expressed library(ies): 5 entry(ies)

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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


               
               nje (0.49776)
               

               
               ton (0.1755)
               

               
               nco (0.161734)
               

               
               pla (0.133672)
               

               
               cty (0.10408)

	40-196, - strand, RNAz p=0.991543
	832-946, - strand, RNAz p=0.904326

	57-189, - strand, RNAmicro p=0.999998
	56-169, + strand, RNAmicro p=0.999994

	73-158, MI0004756 (bta-mir-145), blast E-value=3.00004e-41
	73-158, miR-145 (gnl\|combinedlit\|LIT2162), blast E-value=8.99998e-41

	47-191, DA086382 BRACE2 Homo sapiens cDNA clone BRACE2041033 5', mRNA (dbj\|DA086382.1\|), blast E-value=1.4013e-45, identity=91.84%
	47-191, DB206584 TRACH2 Homo sapiens cDNA clone TRACH2018950 5', mRNA (dbj\|DB206584.1\|), blast E-value=0, identity=92.52%
	47-191, DB262066 UTERU2 Homo sapiens cDNA clone UTERU2019978 5', mRNA (dbj\|DB262066.1\|), blast E-value=0, identity=92.52%
	67-186, 601771704F1 NCI_CGAP_Lu29 Mus musculus cDNA clone IMAGE (gb\|BF163348.1\|), blast E-value=2.00386e-43, identity=94.17%
	78-167, CH3#084_D06MF Canine heart normalized cDNA Library in pBluescript (gb\|CF413172.1\|), blast E-value=6e-35, identity=96.67%
	40-191, 1156976 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN277706.1\|), blast E-value=0, identity=94.74%

	1-1078, gnl\|bosTau2\|chr7 (42137831-42136768)
	1-1078, gnl\|Hg17\|chr5 (148790330-148791965)

	nje (0.49776)
	ton (0.1755)
	nco (0.161734)
	pla (0.133672)
	cty (0.10408)