Non-Coding RNA Search

Ss1.1-Pig4-TMW8055C23.3.5

Sequence:


               
               CTCTCTCACACACACACACACACACACACACACACACACACACACACACAGAAATTAGTA
TATCCATGTATGTCAAGTACAGGTTAAAATAGCAGGGCATTTATAGAGAGAGGTGTAGTC
TTCTAATAAAAGTAGACTGGATCCCCAGGGGTATTTGGGGAAAAGTAACTACTTTTGCTC
AACCCTATCGCTTAAGAAATGTCCAGTTTTGAGTGACTGTAGTATGGATGAGTTTTCTTA
TTTTGTTGATTATTTGAGGCTTTTAACAAGTAGATTGTAAAAGAAGCTGTTGGACTCAGC
ATAGAGTAGAGAAAATATCTTTATAGTCTGGATTTCTGCCCTGCTTAGATTTTAAAAGTA
TAAGCATGGATTGCCAATTCCACTTGATGTAAACAAAACTTTTATACATAATATATATAT
ATATATAATAATAACTTATTGTATCAGTCCAGGTTCAGAAACTTGTGGTAGGCCAGTTCC
AGATAGTTTCATTTCACCTGTAAACTGTATCACTTTTACGAATATTGTAATTTTCAAATG
TATAATATGTTTACAGATGTGCCCTGCATTTAGTCTGCCTTGTTCTTATTTTGATTTTTG
TTGAGTCTCCTGCCTGCTTGCCAAAAGCTAGGATGCTTCAGGCCCATGTACAATTGAAAG
CAGAGGCATCCTTGAGCTTTAAAGCATTGAACAAACTGGAAAATGCATCATACCACATAC
TGAAGTGAAAGAAGTCTGTGTTTTTGTGTTTTTTTTTTTTTTTAAATAAAAATTTTCAAA
AGGTTAAAAAAAAAAAGATACAAGGTTGATTAAAGGAAAAAAAAAAGGCTCCAGTTTGTT
TTATAGGTTTTAAAGTTCTGTGTGTTCAATTGCCTTGTGTAACCACTTGTCGCCTTAGGG
CCAGATTCTCTCCCTCCCCCGTCCCCCTCTTTTTTTTAAACATCTGTTTTGCTTGCCTAG
AATTTGAAAGCTCTTCTGTCTCACGACTCACAAGAAACTTTCTGGGTTAGTGACATACAG
AGGTTGAATGAATATATATTTTAAAAGAAAAAGAAACAACCTCCATCTGACATTTTAATC
TAGAAGCAACACTTACTTTAAAATACCTTTCAAAAGCAGTTGTTGCTTTCCTACTTCCCT
TCCATATATCCCTCAGGCCTCCATGTTTAGAGAAGCCAAAAAGAGAATGTATCCCTTCTC
TGTTTGTCCAAAGGTCTTTGAGTCTCACTTCTAAATGAAACAATGCAACATTTCACTTTG
ATTTCCCCACTGGAATTTCCCTGATTATATCATTAGAGGTATAGAGTTAGGGATGTCTCT
TAACCTTCTGGGAAGCCTGGTGCCCCATTATATTAACTATCAGTATTTTGGGGGCATTGG
GTTAATGGACTTACTTGCCTAGGTACAAGCAGGACTTTGGGACGTTATTTCCTTTGTGCT
GTTTGGTAACACTTAACTCTACTTGTCGCAATCTTC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTCTCTCACACACACACACACACACACACACACACACACACACACACACAGAAATTAGTA
TATCCATGTATGTCAAGTACAGGTTAAAATAGCAGGGCATTTATAGAGAGAGGTGTAGTC
TTCTAATAAAAGTAGACTGGATCCCCAGGGGTATTTGGGGAAAAGTAACTACTTTTGCTC
AACCCTATCGCTTAAGAAATGTCCAGTTTTGAGTGACTGTAGTATGGATGAGTTTTCTTA
TTTTGTTGATTATTTGAGGCTTTTAACAAGTAGATTGTAAAAGAAGCTGTTGGACTCAGC
ATAGAGTAGAGAAAATATCTTTATAGTCTGGATTTCTGCCCTGCTTAGATTTTAAAAGTA
TAAGCATGGATTGCCAATTCCACTTGATGTAAACAAAACTTTTATACATAATATATATAT
ATATATAATAATAACTTATTGTATCAGTCCAGGTTCAGAAACTTGTGGTAGGCCAGTTCC
AGATAGTTTCATTTCACCTGTAAACTGTATCACTTTTACGAATATTGTAATTTTCAAATG
TATAATATGTTTACAGATGTGCCCTGCATTTAGTCTGCCTTGTTCTTATTTTGATTTTTG
TTGAGTCTCCTGCCTGCTTGCCAAAAGCTAGGATGCTTCAGGCCCATGTACAATTGAAAG
CAGAGGCATCCTTGAGCTTTAAAGCATTGAACAAACTGGAAAATGCATCATACCACATAC
TGAAGTGAAAGAAGTCTGTGTTTTTGTGTTTTTTTTTTTTTTTAAATAAAAATTTTCAAA
AGGTTAAAAAAAAAAAGATACAAGGTTGATTAAAGGAAAAAAAAAAGGCTCCAGTTTGTT
TTATAGGTTTTAAAGTTCTGTGTGTTCAATTGCCTTGTGTAACCACTTGTCGCCTTAGGG
CCAGATTCTCTCCCTCCCCCGTCCCCCTCTTTTTTTTAAACATCTGTTTTGCTTGCCTAG
AATTTGAAAGCTCTTCTGTCTCACGACTCACAAGAAACTTTCTGGGTTAGTGACATACAG
AGGTTGAATGAATATATATTTTAAAAGAAAAAGAAACAACCTCCATCTGACATTTTAATC
TAGAAGCAACACTTACTTTAAAATACCTTTCAAAAGCAGTTGTTGCTTTCCTACTTCCCT
TCCATATATCCCTCAGGCCTCCATGTTTAGAGAAGCCAAAAAGAGAATGTATCCCTTCTC
TGTTTGTCCAAAGGTCTTTGAGTCTCACTTCTAAATGAAACAATGCAACATTTCACTTTG
ATTTCCCCACTGGAATTTCCCTGATTATATCATTAGAGGTATAGAGTTAGGGATGTCTCT
TAACCTTCTGGGAAGCCTGGTGCCCCATTATATTAACTATCAGTATTTTGGGGGCATTGG
GTTAATGGACTTACTTGCCTAGGTACAAGCAGGACTTTGGGACGTTATTTCCTTTGTGCT
GTTTGGTAACACTTAACTCTACTTGTCGCAATCTTC

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

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

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               111-226, - strand, RNAz p=0.961969
               

               
               493-709, + strand, RNAz p=0.994948

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


               
               111-226, - strand, RNAz p=0.961969
               

               
               493-709, + strand, RNAz p=0.994948

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               635-791, - strand, RNAmicro p=0.999997
               

               
               642-751, + strand, RNAmicro p=0.982947

Predicted microRNA(s): 2 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


               
               635-791, - strand, RNAmicro p=0.999997
               

               
               642-751, + strand, RNAmicro p=0.982947

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               493-707, DB081543 TESTI4 Homo sapiens cDNA clone TESTI4027585 5', mRNA 
(dbj|DB081543.1|), blast E-value=0, identity=98.14% 
               

               
               493-707, BX373791 Homo sapiens PLACENTA COT 25-NORMALIZED Homo sapiens cDNA 
(emb|BX373791.2|), blast E-value=0, identity=98.14% 
               

               
               493-707, UI-CF-EN1-aeg-n-06-0-UI.s1 UI-CF-EN1 Homo sapiens cDNA clone 
(gb|CB321676.1|), blast E-value=0, identity=98.14% 
               

               
               493-709, 963240 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb|CK774477.1|), 
blast E-value=0, identity=99.08% 
               

               
               493-709, 4121467 BARC 8BOV Bos taurus cDNA clone 8BOV_34H12 5', mRNA 
(gb|CN787368.1|), blast E-value=0, identity=99.08% 
               

               
               493-707, HESC4_34_C01.b1_A037 NIH_MGC_262 Homo sapiens cDNA clone 
(gb|CX869312.1|), blast E-value=0, identity=98.14%

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


               
               493-707, DB081543 TESTI4 Homo sapiens cDNA clone TESTI4027585 5', mRNA 
(dbj|DB081543.1|), blast E-value=0, identity=98.14% 
               

               
               493-707, BX373791 Homo sapiens PLACENTA COT 25-NORMALIZED Homo sapiens cDNA 
(emb|BX373791.2|), blast E-value=0, identity=98.14% 
               

               
               493-707, UI-CF-EN1-aeg-n-06-0-UI.s1 UI-CF-EN1 Homo sapiens cDNA clone 
(gb|CB321676.1|), blast E-value=0, identity=98.14% 
               

               
               493-709, 963240 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb|CK774477.1|), 
blast E-value=0, identity=99.08% 
               

               
               493-709, 4121467 BARC 8BOV Bos taurus cDNA clone 8BOV_34H12 5', mRNA 
(gb|CN787368.1|), blast E-value=0, identity=99.08% 
               

               
               493-707, HESC4_34_C01.b1_A037 NIH_MGC_262 Homo sapiens cDNA clone 
(gb|CX869312.1|), blast E-value=0, identity=98.14%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_020772, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_020772, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               33-932, gnl|bosTau2|chr19 (14293732-14294636)
               

               
               33-932, gnl|Hg17|chr17 (24614262-24613393)
               

               
               33-932, gnl|Mm7|chr11 (77792815-77793688)

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


               
               33-932, gnl|bosTau2|chr19 (14293732-14294636)
               

               
               33-932, gnl|Hg17|chr17 (24614262-24613393)
               

               
               33-932, gnl|Mm7|chr11 (77792815-77793688)

Expressed library(ies): 7 entry(ies)

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Expressed library(ies): 7 entry(ies)

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               pla (0.267344)
               

               
               sin (0.174948)
               

               
               rec (0.17307)
               

               
               ski (0.146735)
               

               
               liv (0.146284)
               

               
               tra (0.123092)
               

               
               ebs (0.118301)

Expressed library(ies): 7 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


               
               pla (0.267344)
               

               
               sin (0.174948)
               

               
               rec (0.17307)
               

               
               ski (0.146735)
               

               
               liv (0.146284)
               

               
               tra (0.123092)
               

               
               ebs (0.118301)

	111-226, - strand, RNAz p=0.961969
	493-709, + strand, RNAz p=0.994948

	635-791, - strand, RNAmicro p=0.999997
	642-751, + strand, RNAmicro p=0.982947

	493-707, DB081543 TESTI4 Homo sapiens cDNA clone TESTI4027585 5', mRNA (dbj\|DB081543.1\|), blast E-value=0, identity=98.14%
	493-707, BX373791 Homo sapiens PLACENTA COT 25-NORMALIZED Homo sapiens cDNA (emb\|BX373791.2\|), blast E-value=0, identity=98.14%
	493-707, UI-CF-EN1-aeg-n-06-0-UI.s1 UI-CF-EN1 Homo sapiens cDNA clone (gb\|CB321676.1\|), blast E-value=0, identity=98.14%
	493-709, 963240 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK774477.1\|), blast E-value=0, identity=99.08%
	493-709, 4121467 BARC 8BOV Bos taurus cDNA clone 8BOV_34H12 5', mRNA (gb\|CN787368.1\|), blast E-value=0, identity=99.08%
	493-707, HESC4_34_C01.b1_A037 NIH_MGC_262 Homo sapiens cDNA clone (gb\|CX869312.1\|), blast E-value=0, identity=98.14%

	33-932, gnl\|bosTau2\|chr19 (14293732-14294636)
	33-932, gnl\|Hg17\|chr17 (24614262-24613393)
	33-932, gnl\|Mm7\|chr11 (77792815-77793688)

	pla (0.267344)
	sin (0.174948)
	rec (0.17307)
	ski (0.146735)
	liv (0.146284)
	tra (0.123092)
	ebs (0.118301)