Non-Coding RNA Search

Ss1.1-rnbm38b_n1.5

Sequence:


               
               CCTCTCCCTCCTTTCCACCAAAGTAGGGGGTAGCAACTGGTTGTCATGGAAACGGGGCTC
TTCACATATTCCCTTCCCTTCCACCCCACATGGCTGGGCAGTGTTAAGGGTGGCAAGATA
GTTTCTGTCCCCACCCCCTTGTACTTGATTCCCCAGCTATCTTTCACAGCCCCCCACCCT
TAGGGGAAGGGGGAGGGGCTTCTCTCTACAATGAGTTTTTTTTTTTTTTTTTCTTTTTTC
TTTTTTTTTTAAAAAAAAAAAAAAATAACCTTGTTTTTTGTTTGAAAAAAAAAAAAAAAA
AAAAAAAAAAAAGGGGGGGCCCCCTTTTTAATTTTCCTTGGGGGGCCCCAATTTTCCCCC
CCCCCTTTTTTTTTTAAAAAAGGGGCCCCTTAGGGG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CCTCTCCCTCCTTTCCACCAAAGTAGGGGGTAGCAACTGGTTGTCATGGAAACGGGGCTC
TTCACATATTCCCTTCCCTTCCACCCCACATGGCTGGGCAGTGTTAAGGGTGGCAAGATA
GTTTCTGTCCCCACCCCCTTGTACTTGATTCCCCAGCTATCTTTCACAGCCCCCCACCCT
TAGGGGAAGGGGGAGGGGCTTCTCTCTACAATGAGTTTTTTTTTTTTTTTTTCTTTTTTC
TTTTTTTTTTAAAAAAAAAAAAAAATAACCTTGTTTTTTGTTTGAAAAAAAAAAAAAAAA
AAAAAAAAAAAAGGGGGGGCCCCCTTTTTAATTTTCCTTGGGGGGCCCCAATTTTCCCCC
CCCCCTTTTTTTTTTAAAAAAGGGGCCCCTTAGGGG

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               Q55DL9_DICDI

Coded protein: 1 entry(ies)

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Protein identifier


               
               Q55DL9_DICDI

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

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

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               41-215, - strand, RNAz p=0.999307
               

               
               46-217, - strand, RNAz p=0.781691

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


               
               41-215, - strand, RNAz p=0.999307
               

               
               46-217, - strand, RNAz p=0.781691

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               91-162, + strand, RNAmicro p=0.907768

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


               
               91-162, + strand, RNAmicro p=0.907768

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               41-205, DA127876 BRACE3 Homo sapiens cDNA clone BRACE3051317 5', mRNA 
(dbj|DA127876.1|), blast E-value=0, identity=92.22% 
               

               
               41-205, DB349895 TRACH3 Homo sapiens cDNA clone TRACH3022095 3', mRNA 
(dbj|DB349895.1|), blast E-value=0, identity=92.22% 
               

               
               41-197, 69323 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|AW430184.1|), 
blast E-value=0, identity=93.75% 
               

               
               41-205, 188340 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BE721236.1|), 
blast E-value=0, identity=94.05% 
               

               
               41-198, LeukoN2_4_D10.b1_A024 Unstimulated peripheral blood leukocytes N2 
(gb|CD466409.1|), blast E-value=0, identity=94.41% 
               

               
               47-205, BovGen_18044 normal cattle brain Bos taurus cDNA clone (gb|CO889719.1|), 
blast E-value=0, identity=93.83%

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


               
               41-205, DA127876 BRACE3 Homo sapiens cDNA clone BRACE3051317 5', mRNA 
(dbj|DA127876.1|), blast E-value=0, identity=92.22% 
               

               
               41-205, DB349895 TRACH3 Homo sapiens cDNA clone TRACH3022095 3', mRNA 
(dbj|DB349895.1|), blast E-value=0, identity=92.22% 
               

               
               41-197, 69323 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|AW430184.1|), 
blast E-value=0, identity=93.75% 
               

               
               41-205, 188340 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BE721236.1|), 
blast E-value=0, identity=94.05% 
               

               
               41-198, LeukoN2_4_D10.b1_A024 Unstimulated peripheral blood leukocytes N2 
(gb|CD466409.1|), blast E-value=0, identity=94.41% 
               

               
               47-205, BovGen_18044 normal cattle brain Bos taurus cDNA clone (gb|CO889719.1|), 
blast E-value=0, identity=93.83%

Aligned organism(s): 13 entry(ies)

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Aligned organism(s): 13 entry(ies)

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               3-285, gnl|bosTau2|chr25 (25696658-25696383)
               

               
               3-285, gnl|canFam2|chr6 (20448090-20447723)
               

               
               3-285, gnl|dasNov1|scaffold_21716 (47812-48185)
               

               
               3-285, gnl|echTel1|scaffold_158292 (3729-3328)
               

               
               3-285, gnl|hg17|chr16 (30658616-30658982)
               

               
               3-285, gnl|Hg17|chr16 (30658676-30658948)
               

               
               3-285, gnl|loxAfr1|scaffold_40764 (31018-31380)
               

               
               3-285, gnl|mm7|chr7 (123657387-123657808)
               

               
               3-285, gnl|Mm7|chr7 (123657448-123657774)
               

               
               3-285, gnl|monDom2|scaffold_478 (39336-39697)
               

               
               3-285, gnl|panTro1|chr18 (31436928-31437294)
               

               
               3-285, gnl|rheMac2|chr20 (28814048-28814428)
               

               
               3-285, gnl|rn3|chr1 (186995649-186996047)

Aligned organism(s): 13 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


               
               3-285, gnl|bosTau2|chr25 (25696658-25696383)
               

               
               3-285, gnl|canFam2|chr6 (20448090-20447723)
               

               
               3-285, gnl|dasNov1|scaffold_21716 (47812-48185)
               

               
               3-285, gnl|echTel1|scaffold_158292 (3729-3328)
               

               
               3-285, gnl|hg17|chr16 (30658616-30658982)
               

               
               3-285, gnl|Hg17|chr16 (30658676-30658948)
               

               
               3-285, gnl|loxAfr1|scaffold_40764 (31018-31380)
               

               
               3-285, gnl|mm7|chr7 (123657387-123657808)
               

               
               3-285, gnl|Mm7|chr7 (123657448-123657774)
               

               
               3-285, gnl|monDom2|scaffold_478 (39336-39697)
               

               
               3-285, gnl|panTro1|chr18 (31436928-31437294)
               

               
               3-285, gnl|rheMac2|chr20 (28814048-28814428)
               

               
               3-285, gnl|rn3|chr1 (186995649-186996047)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               ecc (0.115035)
               

               
               nbm (0.0993246)

Expressed library(ies): 2 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


               
               ecc (0.115035)
               

               
               nbm (0.0993246)

	41-215, - strand, RNAz p=0.999307
	46-217, - strand, RNAz p=0.781691

	41-205, DA127876 BRACE3 Homo sapiens cDNA clone BRACE3051317 5', mRNA (dbj\|DA127876.1\|), blast E-value=0, identity=92.22%
	41-205, DB349895 TRACH3 Homo sapiens cDNA clone TRACH3022095 3', mRNA (dbj\|DB349895.1\|), blast E-value=0, identity=92.22%
	41-197, 69323 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW430184.1\|), blast E-value=0, identity=93.75%
	41-205, 188340 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb\|BE721236.1\|), blast E-value=0, identity=94.05%
	41-198, LeukoN2_4_D10.b1_A024 Unstimulated peripheral blood leukocytes N2 (gb\|CD466409.1\|), blast E-value=0, identity=94.41%
	47-205, BovGen_18044 normal cattle brain Bos taurus cDNA clone (gb\|CO889719.1\|), blast E-value=0, identity=93.83%

	3-285, gnl\|bosTau2\|chr25 (25696658-25696383)
	3-285, gnl\|canFam2\|chr6 (20448090-20447723)
	3-285, gnl\|dasNov1\|scaffold_21716 (47812-48185)
	3-285, gnl\|echTel1\|scaffold_158292 (3729-3328)
	3-285, gnl\|hg17\|chr16 (30658616-30658982)
	3-285, gnl\|Hg17\|chr16 (30658676-30658948)
	3-285, gnl\|loxAfr1\|scaffold_40764 (31018-31380)
	3-285, gnl\|mm7\|chr7 (123657387-123657808)
	3-285, gnl\|Mm7\|chr7 (123657448-123657774)
	3-285, gnl\|monDom2\|scaffold_478 (39336-39697)
	3-285, gnl\|panTro1\|chr18 (31436928-31437294)
	3-285, gnl\|rheMac2\|chr20 (28814048-28814428)
	3-285, gnl\|rn3\|chr1 (186995649-186996047)