Non-Coding RNA Search

Ss1.1-Pig4-TMW8020D21.5

Sequence:


               
               GGGAGGGAAGGGCCTCTAGGGAACTTTGCACTTTCTATACCTTTGTACTATGCACTGCCC
TATTGATTCTACACCCAATAATGTTATTACTTGAACCCATCTGTAAGAAACTGCTTCAGA
AATTCATTTGTGTGTATGTAAAACACCCAACATAGAAACAGGAAAGGAAAAATTCTTCAG
TAATGTACAGATTTTTTTTTTCTTTCCTGTTTCTTGTTTTTTAGTTTTATGTTTTGTTTT
TGTTTTGTTTTGTTTTTTGGTTTTGCTTTGTTTTAGGCCCTTCTTTTTATTTTTAATTAC
CTTTTCTTTTTCTTCTTTTGCATTTCGGTTTCCTTTGGGTTTATGGGTGCCCTGATACTC
CAGCAGAGATCAGAAGGCTGCAGATCCATCCTCTCCATCCGTTACGTGGCTTTGCCATCC
AAGCTTGGAGTGTCTTTACAAAGATAATAACAGTTGTGTTCTTTGCTCTCGTTTTGGATG
CATAGACTGAAAAATTTAAAAAAATAACTTGTAAAATGGCTTGTTAAAAAAAATACAATT
ACCTCTAATCAGTAGTACGCGTAAATGTTTTACAGAATGAAAGGCGTGCTTTTTATTTTC
TTACTTCGTTACATTGGTGGCGAAAGAAGTCTGTATGAAAATCAGTTCTTTGCTGACACA
AGTTCCATTTGTTACAAATGAATTCTAATAAAAATGTCAGTGTTATGCAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGGAGGGAAGGGCCTCTAGGGAACTTTGCACTTTCTATACCTTTGTACTATGCACTGCCC
TATTGATTCTACACCCAATAATGTTATTACTTGAACCCATCTGTAAGAAACTGCTTCAGA
AATTCATTTGTGTGTATGTAAAACACCCAACATAGAAACAGGAAAGGAAAAATTCTTCAG
TAATGTACAGATTTTTTTTTTCTTTCCTGTTTCTTGTTTTTTAGTTTTATGTTTTGTTTT
TGTTTTGTTTTGTTTTTTGGTTTTGCTTTGTTTTAGGCCCTTCTTTTTATTTTTAATTAC
CTTTTCTTTTTCTTCTTTTGCATTTCGGTTTCCTTTGGGTTTATGGGTGCCCTGATACTC
CAGCAGAGATCAGAAGGCTGCAGATCCATCCTCTCCATCCGTTACGTGGCTTTGCCATCC
AAGCTTGGAGTGTCTTTACAAAGATAATAACAGTTGTGTTCTTTGCTCTCGTTTTGGATG
CATAGACTGAAAAATTTAAAAAAATAACTTGTAAAATGGCTTGTTAAAAAAAATACAATT
ACCTCTAATCAGTAGTACGCGTAAATGTTTTACAGAATGAAAGGCGTGCTTTTTATTTTC
TTACTTCGTTACATTGGTGGCGAAAGAAGTCTGTATGAAAATCAGTTCTTTGCTGACACA
AGTTCCATTTGTTACAAATGAATTCTAATAAAAATGTCAGTGTTATGCAAAAAAAAAAAA

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

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

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               120-236, + strand, RNAz p=0.999479

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


               
               120-236, + strand, RNAz p=0.999479

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               154-216, + strand, RNAmicro p=0.998345

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


               
               154-216, + strand, RNAmicro p=0.998345

Similar Transcript(s): 5 entry(ies)

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Similar Transcript(s): 5 entry(ies)

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               120-176, BE04021B2E02 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN440180.1|), blast E-value=8e-18, identity=96.49% 
               

               
               120-176, BovGen_19091 normal cattle brain Bos taurus cDNA clone 
(gb|CO890766.1|), blast E-value=8e-18, identity=96.49% 
               

               
               120-176, BovGen_20951 normal cattle brain Bos taurus cDNA clone 
(gb|CO892626.1|), blast E-value=8e-18, identity=96.49% 
               

               
               120-176, 1593573 MARC 11BOV Bos taurus cDNA 5', mRNA sequence (gb|DY460914.1|), 
blast E-value=8e-18, identity=96.49% 
               

               
               120-176, 1599109 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY462088.1|), 
blast E-value=8e-18, identity=96.49%

Similar Transcript(s): 5 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


               
               120-176, BE04021B2E02 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN440180.1|), blast E-value=8e-18, identity=96.49% 
               

               
               120-176, BovGen_19091 normal cattle brain Bos taurus cDNA clone 
(gb|CO890766.1|), blast E-value=8e-18, identity=96.49% 
               

               
               120-176, BovGen_20951 normal cattle brain Bos taurus cDNA clone 
(gb|CO892626.1|), blast E-value=8e-18, identity=96.49% 
               

               
               120-176, 1593573 MARC 11BOV Bos taurus cDNA 5', mRNA sequence (gb|DY460914.1|), 
blast E-value=8e-18, identity=96.49% 
               

               
               120-176, 1599109 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY462088.1|), 
blast E-value=8e-18, identity=96.49%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-304, gnl|bosTau2|chr8 (16181629-16181932)
               

               
               1-304, gnl|Hg17|chr9 (8304901-8304617)
               

               
               1-304, gnl|Mm7|chr4 (75345632-75345334)

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


               
               1-304, gnl|bosTau2|chr8 (16181629-16181932)
               

               
               1-304, gnl|Hg17|chr9 (8304901-8304617)
               

               
               1-304, gnl|Mm7|chr4 (75345632-75345334)

Expressed library(ies): 4 entry(ies)

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Expressed library(ies): 4 entry(ies)

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               fcc (0.197785)
               

               
               kid (0.129735)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)

Expressed library(ies): 4 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


               
               fcc (0.197785)
               

               
               kid (0.129735)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)

	120-176, BE04021B2E02 BE04 Normalized and Subtracted bovine embryonic and (gb\|CN440180.1\|), blast E-value=8e-18, identity=96.49%
	120-176, BovGen_19091 normal cattle brain Bos taurus cDNA clone (gb\|CO890766.1\|), blast E-value=8e-18, identity=96.49%
	120-176, BovGen_20951 normal cattle brain Bos taurus cDNA clone (gb\|CO892626.1\|), blast E-value=8e-18, identity=96.49%
	120-176, 1593573 MARC 11BOV Bos taurus cDNA 5', mRNA sequence (gb\|DY460914.1\|), blast E-value=8e-18, identity=96.49%
	120-176, 1599109 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb\|DY462088.1\|), blast E-value=8e-18, identity=96.49%

	1-304, gnl\|bosTau2\|chr8 (16181629-16181932)
	1-304, gnl\|Hg17\|chr9 (8304901-8304617)
	1-304, gnl\|Mm7\|chr4 (75345632-75345334)