Non-Coding RNA Search

Ss1.1-Lym1-jns86_E09.f.5

Sequence:


               
               AAGTTTTTCAACCTTTATTAATATGTCATCTATTTTTAAAAATAGTGAGACTGCTCCCAA
CAACAGATGCATGAGAGATACCTGAAAATTAAAAGGGCAAAGTAATTACACTAGATTCCT
GTGAAAATACAAACACAAACCAGTTTAGGACAACAAATTCAATCAAGAGGTATAGTATAG
TTTGAAGCTACTTCTACTTCCCCTAACTTCATCTGAAGAAAAAGGAGGAAAACGGAAAGG
CAGAAGTAAAAGTCAAGCAAAGACGCCGCAGGGATCTGAACCCTGTCCTGGAAGCCAGGA
GTGCCAACCACCAGCATCTTTTGCTTTTTTTTTTAAAGCTAGGTAAAGGCCAAAAAGCAA
AACCTGAGAAAACAAAGTATTTTGTTTTCTCAGGAAAAGAAAAACCTTTAAATTTTAAGA
CCCTACTGAAGAGCACTGGAGAATCTGCTTCAGCTAAGATGCTAGCTTGGCCAAGTCTGT
TATGTTCACCTGAAAAAGTCTTAGCAGAGAGTTTTTGCATTCCCACCCAACAGCCCTCAA
CTGCTAAAATGCCTATCTCCTTCATTATTTGTTTTGTGTGTTCGAATTGTCATTTTATTT
TTATGTTATTTCTCCATTTACTGGTTCAAGTTTGTTTTCAGCACTGGACAGAAATAATGC
TACACATTTAAAACATCTGAGAGCTTTTTAGTTGTGGTCTTAATGTCATTAAACGTTTAC
AGGCAAATTAACGGTCTTTTCTAACAGTGCAACCCACCCAAGACCTCGGCACCAGTTACC
TTAAACTGCTTATGGATCATGCCCACAAGGATCCAAGCTACCGACAGCATCGAGGTGAGG
GGTGAAGGGTCTGCGCTAGGCCAAAGGCAGGGGGTGACGATGTGGCAGAGAAGTCACTTG
TGGGGAGACCTTGCTTTTTAACAGGTTTCTGGAAAAGCTAGGGAGAAGTGGTTGCCCGCT
TTCCCCCTTTCCCTCCCCTTCAAGCACCACTCAGGTCTGGGCTTCATCAAGGGCTGCTCT
AAAAACAGCCCAGGGAGGCGTTACACAGGCCGGGGGTACGCAAGGTACGCAGGCATTCCT
TTGGATGCTTCACTCCCCAGAGGCAGTTGAGGCAAGTCCTCATGTCTAACCGAAGGTGGG
GTTGTGAGGCTGACACCACTTAGATTGACCTTAGTTTAATAGCGCTTTGTTGTCTCTCTT
GCCACAGGAAGGCGCCAGGGTTGT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AAGTTTTTCAACCTTTATTAATATGTCATCTATTTTTAAAAATAGTGAGACTGCTCCCAA
CAACAGATGCATGAGAGATACCTGAAAATTAAAAGGGCAAAGTAATTACACTAGATTCCT
GTGAAAATACAAACACAAACCAGTTTAGGACAACAAATTCAATCAAGAGGTATAGTATAG
TTTGAAGCTACTTCTACTTCCCCTAACTTCATCTGAAGAAAAAGGAGGAAAACGGAAAGG
CAGAAGTAAAAGTCAAGCAAAGACGCCGCAGGGATCTGAACCCTGTCCTGGAAGCCAGGA
GTGCCAACCACCAGCATCTTTTGCTTTTTTTTTTAAAGCTAGGTAAAGGCCAAAAAGCAA
AACCTGAGAAAACAAAGTATTTTGTTTTCTCAGGAAAAGAAAAACCTTTAAATTTTAAGA
CCCTACTGAAGAGCACTGGAGAATCTGCTTCAGCTAAGATGCTAGCTTGGCCAAGTCTGT
TATGTTCACCTGAAAAAGTCTTAGCAGAGAGTTTTTGCATTCCCACCCAACAGCCCTCAA
CTGCTAAAATGCCTATCTCCTTCATTATTTGTTTTGTGTGTTCGAATTGTCATTTTATTT
TTATGTTATTTCTCCATTTACTGGTTCAAGTTTGTTTTCAGCACTGGACAGAAATAATGC
TACACATTTAAAACATCTGAGAGCTTTTTAGTTGTGGTCTTAATGTCATTAAACGTTTAC
AGGCAAATTAACGGTCTTTTCTAACAGTGCAACCCACCCAAGACCTCGGCACCAGTTACC
TTAAACTGCTTATGGATCATGCCCACAAGGATCCAAGCTACCGACAGCATCGAGGTGAGG
GGTGAAGGGTCTGCGCTAGGCCAAAGGCAGGGGGTGACGATGTGGCAGAGAAGTCACTTG
TGGGGAGACCTTGCTTTTTAACAGGTTTCTGGAAAAGCTAGGGAGAAGTGGTTGCCCGCT
TTCCCCCTTTCCCTCCCCTTCAAGCACCACTCAGGTCTGGGCTTCATCAAGGGCTGCTCT
AAAAACAGCCCAGGGAGGCGTTACACAGGCCGGGGGTACGCAAGGTACGCAGGCATTCCT
TTGGATGCTTCACTCCCCAGAGGCAGTTGAGGCAAGTCCTCATGTCTAACCGAAGGTGGG
GTTGTGAGGCTGACACCACTTAGATTGACCTTAGTTTAATAGCGCTTTGTTGTCTCTCTT
GCCACAGGAAGGCGCCAGGGTTGT

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

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

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               245-479, - strand, RNAz p=0.999641
               

               
               744-1102, - strand, RNAz p=0.999918

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


               
               245-479, - strand, RNAz p=0.999641
               

               
               744-1102, - strand, RNAz p=0.999918

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               338-435, - strand, RNAmicro p=0.999476

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


               
               338-435, - strand, RNAmicro p=0.999476

Similar Transcript(s): 12 entry(ies)

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Similar Transcript(s): 12 entry(ies)

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               335-479, DB817903 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB817903.1|), blast E-value=0, identity=100% 
               

               
               345-479, CR553014 Normalized and Subtracted bovine embryonic and 
(emb|CR553014.2|), blast E-value=3e-31, identity=89.05% 
               

               
               345-479, 1IL30E08 Bos taurus Ileum #1 library Bos taurus cDNA, mRNA sequence 
(gb|CB222666.1|), blast E-value=3e-31, identity=89.05% 
               

               
               336-324, LeukoN1_7_D08.b1_A023 Unstimulated peripheral blood leukocytes N1 
(gb|CD465761.1|), blast E-value=2e-20, identity=93.24% 
               

               
               345-324, BovGen_05097 normal cattle brain Bos taurus cDNA clone 
(gb|CO876772.1|), blast E-value=2e-26, identity=95% 
               

               
               336-324, GL-Cf-9356 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN752562.1|), blast E-value=0.000000000000004, identity=91.78% 
               

               
               744-978, DB817903 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB817903.1|), blast E-value=0, identity=100% 
               

               
               790-991, CR553014 Normalized and Subtracted bovine embryonic and 
(emb|CR553014.2|), blast E-value=0, identity=96.04% 
               

               
               792-991, HL01015B1F05 Equine lymphocyte cDNA Library Equus caballus cDNA 
(gb|DN505575.1|), blast E-value=0, identity=97% 
               

               
               744-1102, EST-AR173D11 Infected Porcine Peripheral Blood Cell cDNA library 
(gb|DV230493.1|), blast E-value=0, identity=100% 
               

               
               790-991, LB01714.CR_A22 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DV814640.1|), 
blast E-value=0, identity=96.04% 
               

               
               790-991, LB02926.CR_D20 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV921870.1|), 
blast E-value=0, identity=96.04%

Similar Transcript(s): 12 entry(ies)

Help | Less info

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


               
               335-479, DB817903 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB817903.1|), blast E-value=0, identity=100% 
               

               
               345-479, CR553014 Normalized and Subtracted bovine embryonic and 
(emb|CR553014.2|), blast E-value=3e-31, identity=89.05% 
               

               
               345-479, 1IL30E08 Bos taurus Ileum #1 library Bos taurus cDNA, mRNA sequence 
(gb|CB222666.1|), blast E-value=3e-31, identity=89.05% 
               

               
               336-324, LeukoN1_7_D08.b1_A023 Unstimulated peripheral blood leukocytes N1 
(gb|CD465761.1|), blast E-value=2e-20, identity=93.24% 
               

               
               345-324, BovGen_05097 normal cattle brain Bos taurus cDNA clone 
(gb|CO876772.1|), blast E-value=2e-26, identity=95% 
               

               
               336-324, GL-Cf-9356 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN752562.1|), blast E-value=0.000000000000004, identity=91.78% 
               

               
               744-978, DB817903 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB817903.1|), blast E-value=0, identity=100% 
               

               
               790-991, CR553014 Normalized and Subtracted bovine embryonic and 
(emb|CR553014.2|), blast E-value=0, identity=96.04% 
               

               
               792-991, HL01015B1F05 Equine lymphocyte cDNA Library Equus caballus cDNA 
(gb|DN505575.1|), blast E-value=0, identity=97% 
               

               
               744-1102, EST-AR173D11 Infected Porcine Peripheral Blood Cell cDNA library 
(gb|DV230493.1|), blast E-value=0, identity=100% 
               

               
               790-991, LB01714.CR_A22 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DV814640.1|), 
blast E-value=0, identity=96.04% 
               

               
               790-991, LB02926.CR_D20 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV921870.1|), 
blast E-value=0, identity=96.04%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               245-1102, gnl|bosTau2|chr29 (38603436-38602580)
               

               
               245-1102, gnl|Hg17|chr11 (65030238-65029390)
               

               
               245-1102, gnl|Mm7|chr19 (5690715-5691508)

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


               
               245-1102, gnl|bosTau2|chr29 (38603436-38602580)
               

               
               245-1102, gnl|Hg17|chr11 (65030238-65029390)
               

               
               245-1102, gnl|Mm7|chr19 (5690715-5691508)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               eye (0.170503)
               

               
               lnt (0.142308)

Expressed library(ies): 2 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


               
               eye (0.170503)
               

               
               lnt (0.142308)

	245-479, - strand, RNAz p=0.999641
	744-1102, - strand, RNAz p=0.999918

	335-479, DB817903 full-length enriched swine cDNA library, adult thymus Sus (dbj\|DB817903.1\|), blast E-value=0, identity=100%
	345-479, CR553014 Normalized and Subtracted bovine embryonic and (emb\|CR553014.2\|), blast E-value=3e-31, identity=89.05%
	345-479, 1IL30E08 Bos taurus Ileum #1 library Bos taurus cDNA, mRNA sequence (gb\|CB222666.1\|), blast E-value=3e-31, identity=89.05%
	336-324, LeukoN1_7_D08.b1_A023 Unstimulated peripheral blood leukocytes N1 (gb\|CD465761.1\|), blast E-value=2e-20, identity=93.24%
	345-324, BovGen_05097 normal cattle brain Bos taurus cDNA clone (gb\|CO876772.1\|), blast E-value=2e-26, identity=95%
	336-324, GL-Cf-9356 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue (gb\|DN752562.1\|), blast E-value=0.000000000000004, identity=91.78%
	744-978, DB817903 full-length enriched swine cDNA library, adult thymus Sus (dbj\|DB817903.1\|), blast E-value=0, identity=100%
	790-991, CR553014 Normalized and Subtracted bovine embryonic and (emb\|CR553014.2\|), blast E-value=0, identity=96.04%
	792-991, HL01015B1F05 Equine lymphocyte cDNA Library Equus caballus cDNA (gb\|DN505575.1\|), blast E-value=0, identity=97%
	744-1102, EST-AR173D11 Infected Porcine Peripheral Blood Cell cDNA library (gb\|DV230493.1\|), blast E-value=0, identity=100%
	790-991, LB01714.CR_A22 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb\|DV814640.1\|), blast E-value=0, identity=96.04%
	790-991, LB02926.CR_D20 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|DV921870.1\|), blast E-value=0, identity=96.04%

	245-1102, gnl\|bosTau2\|chr29 (38603436-38602580)
	245-1102, gnl\|Hg17\|chr11 (65030238-65029390)
	245-1102, gnl\|Mm7\|chr19 (5690715-5691508)