Non-Coding RNA Search

Ss1.1-Pig4-TMW8045L10.3

Sequence:


               
               CTCAGGCACACGGTCTCCATCCCCATTCCACTCTTTGGCTCTGGCCATGTCCCTTGCAAA
GGCTCCACAAGTGCTGTGAAGAGCCTTCCATGGTGGAGACTTCCCTTAGGGCTGTGATTT
CCTGTGGGGCTAGGAAGGAAGGAAATCATGTACATGGTGTCTTCAGTGGTTGGGCGGCTC
CTCAGGTCTCCAGACCCCATTTGCCAGAGTGTCACCATTGAGGAGAGCAGTAAATGCAAG
AGAAGGAAGTGGTCTGTAAGGACGGCAGAAGGCTAGAGGAAGCATGCCTGGAGGCAGTTG
TTTTCCCAGCATCTCTTCCCCTGTCCTGCATGGTTCACACCGGAGAACCTTCAGGGCCCA
CCAGCAACAGTAGCAGCAGCTCCCACCCCGGGACTCCCAGAAGCCAGTAGAGAGACCAGG
AGCCACCTCAATCAGCAGGACATCCTCACTGCCCCTCTTGCAGTCTCCCCTTACCCTTCC
TGAATGCACAGTCTCCCCACCCTTGCCCTTCAGCCCCCTGCTTGGCTGTATGCACTGTCT
GTATTGCACTGAGAAAGGAAGGGAGAGCAGAGCGAGGTGGAGAGGATGGAGAGAGGGCAA
GCTCAGCACCCCCTCCTGGCCAGGCCCTACCAGCCTGAGCTTGCTTCCTCCAGGAGAGGC
AAAGGGGTGGTGTTTGCATGGGAGGTGTCTGCCTGCCCTCAGCCTGATGTCCCTGGTGGA
GCAGGTGCTTCTGGGTGGGCCAGCCTCTAATTTGCACACCTGAAAATCGCGAAATTGAAT
TTAGATAGATTGATTTTTAAAACTTTTTTTTTTGGAGTAGGGATGGTAGGGGAATCATTT
AATTTAAATCATTAAGATTCCCCTGCCCAAACCCAGACTCCTGTGTACAGATGCTATTTA
GAGGGAATCAGAAAAATGCCAAGCCTTTTTTCTCTTTGAATGTGCTGTCTATTTTTATAA
CTGAACTTGTACATATGTATAAAGAGAGACACATCTTTCTTTTACTAACTGGAGAAAAAA
AAATCTTAAATAAAATGGAGTGAGATAATTTTATGT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTCAGGCACACGGTCTCCATCCCCATTCCACTCTTTGGCTCTGGCCATGTCCCTTGCAAA
GGCTCCACAAGTGCTGTGAAGAGCCTTCCATGGTGGAGACTTCCCTTAGGGCTGTGATTT
CCTGTGGGGCTAGGAAGGAAGGAAATCATGTACATGGTGTCTTCAGTGGTTGGGCGGCTC
CTCAGGTCTCCAGACCCCATTTGCCAGAGTGTCACCATTGAGGAGAGCAGTAAATGCAAG
AGAAGGAAGTGGTCTGTAAGGACGGCAGAAGGCTAGAGGAAGCATGCCTGGAGGCAGTTG
TTTTCCCAGCATCTCTTCCCCTGTCCTGCATGGTTCACACCGGAGAACCTTCAGGGCCCA
CCAGCAACAGTAGCAGCAGCTCCCACCCCGGGACTCCCAGAAGCCAGTAGAGAGACCAGG
AGCCACCTCAATCAGCAGGACATCCTCACTGCCCCTCTTGCAGTCTCCCCTTACCCTTCC
TGAATGCACAGTCTCCCCACCCTTGCCCTTCAGCCCCCTGCTTGGCTGTATGCACTGTCT
GTATTGCACTGAGAAAGGAAGGGAGAGCAGAGCGAGGTGGAGAGGATGGAGAGAGGGCAA
GCTCAGCACCCCCTCCTGGCCAGGCCCTACCAGCCTGAGCTTGCTTCCTCCAGGAGAGGC
AAAGGGGTGGTGTTTGCATGGGAGGTGTCTGCCTGCCCTCAGCCTGATGTCCCTGGTGGA
GCAGGTGCTTCTGGGTGGGCCAGCCTCTAATTTGCACACCTGAAAATCGCGAAATTGAAT
TTAGATAGATTGATTTTTAAAACTTTTTTTTTTGGAGTAGGGATGGTAGGGGAATCATTT
AATTTAAATCATTAAGATTCCCCTGCCCAAACCCAGACTCCTGTGTACAGATGCTATTTA
GAGGGAATCAGAAAAATGCCAAGCCTTTTTTCTCTTTGAATGTGCTGTCTATTTTTATAA
CTGAACTTGTACATATGTATAAAGAGAGACACATCTTTCTTTTACTAACTGGAGAAAAAA
AAATCTTAAATAAAATGGAGTGAGATAATTTTATGT

Predicted RNA structure(s): 3 entry(ies)

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Predicted RNA structure(s): 3 entry(ies)

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               41-160, - strand, RNAz p=0.563622
               

               
               552-703, - strand, RNAz p=0.650287
               

               
               784-940, + strand, RNAz p=0.905032

Predicted RNA structure(s): 3 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


               
               41-160, - strand, RNAz p=0.563622
               

               
               552-703, - strand, RNAz p=0.650287
               

               
               784-940, + strand, RNAz p=0.905032

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               815-940, 969927 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb|CK847298.1|), 
blast E-value=0, identity=98.41% 
               

               
               815-940, 4090542 BARC 10BOV Bos taurus cDNA clone 10BOV28_F05 3', mRNA 
(gb|CK951434.1|), blast E-value=0, identity=98.41% 
               

               
               815-940, 4093097 BARC 10BOV Bos taurus cDNA clone 10BOV31_P16 3', mRNA 
(gb|CK953275.1|), blast E-value=0, identity=98.41% 
               

               
               815-940, 4081202 BARC 9BOV Bos taurus cDNA clone 9BOV1_A03 3', mRNA sequence 
(gb|CK966413.1|), blast E-value=0, identity=98.41% 
               

               
               815-940, UMC-bend_0A01-026-a06 Day 16 Uterus from a pregnant animal bend Bos 
(gb|CO727497.1|), blast E-value=0, identity=98.41% 
               

               
               815-940, 001105BEMN043399HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY197971.1|), blast E-value=0, identity=98.41%

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


               
               815-940, 969927 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb|CK847298.1|), 
blast E-value=0, identity=98.41% 
               

               
               815-940, 4090542 BARC 10BOV Bos taurus cDNA clone 10BOV28_F05 3', mRNA 
(gb|CK951434.1|), blast E-value=0, identity=98.41% 
               

               
               815-940, 4093097 BARC 10BOV Bos taurus cDNA clone 10BOV31_P16 3', mRNA 
(gb|CK953275.1|), blast E-value=0, identity=98.41% 
               

               
               815-940, 4081202 BARC 9BOV Bos taurus cDNA clone 9BOV1_A03 3', mRNA sequence 
(gb|CK966413.1|), blast E-value=0, identity=98.41% 
               

               
               815-940, UMC-bend_0A01-026-a06 Day 16 Uterus from a pregnant animal bend Bos 
(gb|CO727497.1|), blast E-value=0, identity=98.41% 
               

               
               815-940, 001105BEMN043399HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY197971.1|), blast E-value=0, identity=98.41%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of AK002176, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of AK002176, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1056, gnl|bosTau2|chr10 (25782801-25781756)
               

               
               1-1056, gnl|Hg17|chr15 (39059404-39058373)
               

               
               1-1056, gnl|Mm7|chr2 (119114917-119113894)

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


               
               1-1056, gnl|bosTau2|chr10 (25782801-25781756)
               

               
               1-1056, gnl|Hg17|chr15 (39059404-39058373)
               

               
               1-1056, gnl|Mm7|chr2 (119114917-119113894)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               fhi (0.339155)
               

               
               clu (0.119646)

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


               
               fhi (0.339155)
               

               
               clu (0.119646)

	41-160, - strand, RNAz p=0.563622
	552-703, - strand, RNAz p=0.650287
	784-940, + strand, RNAz p=0.905032

	815-940, 969927 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK847298.1\|), blast E-value=0, identity=98.41%
	815-940, 4090542 BARC 10BOV Bos taurus cDNA clone 10BOV28_F05 3', mRNA (gb\|CK951434.1\|), blast E-value=0, identity=98.41%
	815-940, 4093097 BARC 10BOV Bos taurus cDNA clone 10BOV31_P16 3', mRNA (gb\|CK953275.1\|), blast E-value=0, identity=98.41%
	815-940, 4081202 BARC 9BOV Bos taurus cDNA clone 9BOV1_A03 3', mRNA sequence (gb\|CK966413.1\|), blast E-value=0, identity=98.41%
	815-940, UMC-bend_0A01-026-a06 Day 16 Uterus from a pregnant animal bend Bos (gb\|CO727497.1\|), blast E-value=0, identity=98.41%
	815-940, 001105BEMN043399HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY197971.1\|), blast E-value=0, identity=98.41%

	1-1056, gnl\|bosTau2\|chr10 (25782801-25781756)
	1-1056, gnl\|Hg17\|chr15 (39059404-39058373)
	1-1056, gnl\|Mm7\|chr2 (119114917-119113894)