Non-Coding RNA Search

Ss1.1-recc2820c_b3.5

Sequence:


               
               ACTGTTCTCTTGTTTCCCCATGTGGGGAAAGGGAAGGCCAATGGACACCTTCATGGTTTC
TAGGAGGGGGTCCTGTACGCCCCCCGCGGTGCAGTTCTCACCTCACAAGCTTGCCACCTT
CCTGCGCTGCAGCCACCGCCACTACCGCCCCGTCGTGGGGCAGGCTGGTTTCCCTCTTGC
CAGTGTGGTTATGTTATGTTGGAAAGAGCAGAGGGAGACAGGGCAGGCTTGGCCCCCGGA
ACAAAGAAGCACTGGCAAGCCCACCCTCCTCTCGGCTCTGCTCACCTTGCGACCTGAGTC
CGTTCCAGAGTTGAAACTGTCCTGTTAGCCAGTCACCCCTCGGGCCTGCACAGATACCTC
ATCCGCCCGCTGCCCCTGCCCCTCCCCGCCCCCACTGCAGCAGTGGGGACCTCAGAATCT
AGTGCCGAATGACTATGTCCAGATTGGTGACAAAGGGTGTTGTTGCTGTTGTTTTTGTTG
TCATTTGTGAACGCTGTGATGCTGTGTGCCCGAGAGGGCAGCCCGCCCAGCCCTTCCTTG
GGCATCTCCCCTCTGAGAGCTGTCAGGACCACATCTGTCCTCGCCCTGTGGGACCGCCTG
CCCCTCCCCTCCCTAGCCCTTCCAGCCTGGGGGACGTGCGTGTGCGCACACACAGACACA
CACACACACACACATCTTACCTCTCATGCGTGTTTTACTTTTGGATGTTCAGAGTGGCTC
ACTGGCTGGGAGTCTTTACCTCGGGGAGAGGGGGAGGTTGGTTCCTTGGGGGGCCAAAGA
AGGGCAGGGGATTCCTGAAGGGGAATTAGGGGGTCACCATACCCCCTGCTCTCTCCAGGA
ACAGCTGCTTCTCCCCCCATCCCAGGGTCCCACCCCCGCTCCCCCAAAGAGGTGGCCCTT
GTTTACAGTGAGGACTCGGTCACTGTGTCTCCGTTTCCTGAAATATAAATCGTAGTGACC
CCAGACTGTAGAGATTTTTATGTGTTTGGATACATCTGCTGTGTGGGAAAAAAAAAAAAC
AAAACTACAAAAACCCTAATTTTGTACATATTGTATTTTTACTATTGAACTGTATTCTAG
TGGCTGTTCATGCTCCAAGACTTTAGGTATTGAGACATGAATACTCTCCATGTAATAAGC
ACTTGCCTGGAATAAAATATAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ACTGTTCTCTTGTTTCCCCATGTGGGGAAAGGGAAGGCCAATGGACACCTTCATGGTTTC
TAGGAGGGGGTCCTGTACGCCCCCCGCGGTGCAGTTCTCACCTCACAAGCTTGCCACCTT
CCTGCGCTGCAGCCACCGCCACTACCGCCCCGTCGTGGGGCAGGCTGGTTTCCCTCTTGC
CAGTGTGGTTATGTTATGTTGGAAAGAGCAGAGGGAGACAGGGCAGGCTTGGCCCCCGGA
ACAAAGAAGCACTGGCAAGCCCACCCTCCTCTCGGCTCTGCTCACCTTGCGACCTGAGTC
CGTTCCAGAGTTGAAACTGTCCTGTTAGCCAGTCACCCCTCGGGCCTGCACAGATACCTC
ATCCGCCCGCTGCCCCTGCCCCTCCCCGCCCCCACTGCAGCAGTGGGGACCTCAGAATCT
AGTGCCGAATGACTATGTCCAGATTGGTGACAAAGGGTGTTGTTGCTGTTGTTTTTGTTG
TCATTTGTGAACGCTGTGATGCTGTGTGCCCGAGAGGGCAGCCCGCCCAGCCCTTCCTTG
GGCATCTCCCCTCTGAGAGCTGTCAGGACCACATCTGTCCTCGCCCTGTGGGACCGCCTG
CCCCTCCCCTCCCTAGCCCTTCCAGCCTGGGGGACGTGCGTGTGCGCACACACAGACACA
CACACACACACACATCTTACCTCTCATGCGTGTTTTACTTTTGGATGTTCAGAGTGGCTC
ACTGGCTGGGAGTCTTTACCTCGGGGAGAGGGGGAGGTTGGTTCCTTGGGGGGCCAAAGA
AGGGCAGGGGATTCCTGAAGGGGAATTAGGGGGTCACCATACCCCCTGCTCTCTCCAGGA
ACAGCTGCTTCTCCCCCCATCCCAGGGTCCCACCCCCGCTCCCCCAAAGAGGTGGCCCTT
GTTTACAGTGAGGACTCGGTCACTGTGTCTCCGTTTCCTGAAATATAAATCGTAGTGACC
CCAGACTGTAGAGATTTTTATGTGTTTGGATACATCTGCTGTGTGGGAAAAAAAAAAAAC
AAAACTACAAAAACCCTAATTTTGTACATATTGTATTTTTACTATTGAACTGTATTCTAG
TGGCTGTTCATGCTCCAAGACTTTAGGTATTGAGACATGAATACTCTCCATGTAATAAGC
ACTTGCCTGGAATAAAATATAAAA

Predicted RNA structure(s): 1 entry(ies)

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Predicted RNA structure(s): 1 entry(ies)

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               506-880, - strand, RNAz p=0.999128

Predicted RNA structure(s): 1 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


               
               506-880, - strand, RNAz p=0.999128

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               791-881, + strand, RNAmicro p=0.999951

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


               
               791-881, + strand, RNAmicro p=0.999951

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               675-631, UI-H-EU1-bac-j-01-0-UI.s1 NCI_CGAP_Ct1 Homo sapiens cDNA clone 
(gb|BQ446779.1|), blast E-value=3e-23, identity=90.57% 
               

               
               675-631, UI-H-DT1-awa-e-07-0-UI.s1 NCI_CGAP_DT1 Homo sapiens cDNA clone 
(gb|CA439303.1|), blast E-value=1e-19, identity=94.52% 
               

               
               675-631, UI-H-DP0-avr-b-22-0-UI.s1 NCI_CGAP_Fs1 Homo sapiens cDNA clone 
(gb|CA442808.1|), blast E-value=3e-23, identity=90.57% 
               

               
               675-631, ir86f06.y1 HR85 islet Homo sapiens cDNA clone IMAGE (gb|CA950091.1|), 
blast E-value=2e-27, identity=92.45% 
               

               
               675-877, 704881 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB450240.1|), 
blast E-value=0, identity=93.6% 
               

               
               675-626, UI-H-FT2-bjg-m-06-0-UI.s1 NCI_CGAP_FT2 Homo sapiens cDNA clone 
(gb|CN480867.1|), blast E-value=1e-22, identity=90.1%

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


               
               675-631, UI-H-EU1-bac-j-01-0-UI.s1 NCI_CGAP_Ct1 Homo sapiens cDNA clone 
(gb|BQ446779.1|), blast E-value=3e-23, identity=90.57% 
               

               
               675-631, UI-H-DT1-awa-e-07-0-UI.s1 NCI_CGAP_DT1 Homo sapiens cDNA clone 
(gb|CA439303.1|), blast E-value=1e-19, identity=94.52% 
               

               
               675-631, UI-H-DP0-avr-b-22-0-UI.s1 NCI_CGAP_Fs1 Homo sapiens cDNA clone 
(gb|CA442808.1|), blast E-value=3e-23, identity=90.57% 
               

               
               675-631, ir86f06.y1 HR85 islet Homo sapiens cDNA clone IMAGE (gb|CA950091.1|), 
blast E-value=2e-27, identity=92.45% 
               

               
               675-877, 704881 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB450240.1|), 
blast E-value=0, identity=93.6% 
               

               
               675-626, UI-H-FT2-bjg-m-06-0-UI.s1 NCI_CGAP_FT2 Homo sapiens cDNA clone 
(gb|CN480867.1|), blast E-value=1e-22, identity=90.1%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               311-1164, gnl|bosTau2|chr19 (17886888-17886008)
               

               
               311-1164, gnl|Hg17|chr17 (2234984-2234144)
               

               
               311-1164, gnl|Mm7|chr11 (74926465-74927258)

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


               
               311-1164, gnl|bosTau2|chr19 (17886888-17886008)
               

               
               311-1164, gnl|Hg17|chr17 (2234984-2234144)
               

               
               311-1164, gnl|Mm7|chr11 (74926465-74927258)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               eep (0.245128)
               

               
               ecc (0.115035)

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


               
               eep (0.245128)
               

               
               ecc (0.115035)

	675-631, UI-H-EU1-bac-j-01-0-UI.s1 NCI_CGAP_Ct1 Homo sapiens cDNA clone (gb\|BQ446779.1\|), blast E-value=3e-23, identity=90.57%
	675-631, UI-H-DT1-awa-e-07-0-UI.s1 NCI_CGAP_DT1 Homo sapiens cDNA clone (gb\|CA439303.1\|), blast E-value=1e-19, identity=94.52%
	675-631, UI-H-DP0-avr-b-22-0-UI.s1 NCI_CGAP_Fs1 Homo sapiens cDNA clone (gb\|CA442808.1\|), blast E-value=3e-23, identity=90.57%
	675-631, ir86f06.y1 HR85 islet Homo sapiens cDNA clone IMAGE (gb\|CA950091.1\|), blast E-value=2e-27, identity=92.45%
	675-877, 704881 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb\|CB450240.1\|), blast E-value=0, identity=93.6%
	675-626, UI-H-FT2-bjg-m-06-0-UI.s1 NCI_CGAP_FT2 Homo sapiens cDNA clone (gb\|CN480867.1\|), blast E-value=1e-22, identity=90.1%

	311-1164, gnl\|bosTau2\|chr19 (17886888-17886008)
	311-1164, gnl\|Hg17\|chr17 (2234984-2234144)
	311-1164, gnl\|Mm7\|chr11 (74926465-74927258)