Non-Coding RNA Search

Ss1.1-Pig4-TMW8059I07.3

Sequence:


               
               CCTCTTTTCGTGTCTTCAAATGTGCAGGAAATGCGCAACTGTCATCTGGAATCGGTTCCA
TCTCTTCTGTGTGTTAGATCAAACCAAAGAAGCCCCCAGCCATGCCCAAATGCTGCTCCA
AAAGCCTGCCTTCCTGTCCTTACAAAAACCTTGCAGGATTAAATGTGTTAACTTTTTTAT
TTTTGTACAGTTTCTAAGTGATTTTTGCTAGTGATGTTAAATTGAATTAAGTTTATTTGA
GGGGTGTGAGCACCTCCTCCATTGAAATAAACTGGTGACTTTCCTTTTATTTTTTAAACG
CGGAAACCCGTTGTGTGCCTCTCGATTTAAGGGTTTCTGATTACATTATTCTTACGACCA
GCATTGATCCTTTATATACAAAGATATGTTTTCCTTGTTTTTTATTACTGTTTCAGAAGA
AAATAAACCTTTTATTTTGCTCTGGACCCAGTAACTGCGCTGGTACATAGACGCACTGAG
AAAACAAACTTTTGTAACCACCTCTGACTGTTTTTGTATATGAAAGTTGATTACTTTTGA
AATATTTGGATCTAGTTTCTAAGTTATTTTAGTGTTTTATATGTTCCCGGAAATTACTTT
GAATCGGTCACCAGCATAATGAGTTCTTGGTGATGCAGCGGTGAGACTTGTAATGAGCAA
AAGCTACCTGGAGTAGCTCTTTTCCCCCCTTTCGTAGGACCCTGTTTTGATTACAGTAAG
ACATCACAGATTACCTGAAACCCCTTCAAGTATAACTAGATCCTCCTTCCTTCCACATCT
AATTGCTTAATAGTTTGAAGAAACTATTGGAAATGGGCATTTTATATGACATGTATGGCT
TTAAAAGATTAAAAATGAAGAAAAAGAAAAACGAGAAGGTTTATGTGGGTCTGTAAGGTA
TGGCTGTGGAAAGATATTGTAGTAGTTTTGACACTATTGTTATTACCTTTAAAATCATTT
ACCCAATAAAATGTTAAAACTGAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CCTCTTTTCGTGTCTTCAAATGTGCAGGAAATGCGCAACTGTCATCTGGAATCGGTTCCA
TCTCTTCTGTGTGTTAGATCAAACCAAAGAAGCCCCCAGCCATGCCCAAATGCTGCTCCA
AAAGCCTGCCTTCCTGTCCTTACAAAAACCTTGCAGGATTAAATGTGTTAACTTTTTTAT
TTTTGTACAGTTTCTAAGTGATTTTTGCTAGTGATGTTAAATTGAATTAAGTTTATTTGA
GGGGTGTGAGCACCTCCTCCATTGAAATAAACTGGTGACTTTCCTTTTATTTTTTAAACG
CGGAAACCCGTTGTGTGCCTCTCGATTTAAGGGTTTCTGATTACATTATTCTTACGACCA
GCATTGATCCTTTATATACAAAGATATGTTTTCCTTGTTTTTTATTACTGTTTCAGAAGA
AAATAAACCTTTTATTTTGCTCTGGACCCAGTAACTGCGCTGGTACATAGACGCACTGAG
AAAACAAACTTTTGTAACCACCTCTGACTGTTTTTGTATATGAAAGTTGATTACTTTTGA
AATATTTGGATCTAGTTTCTAAGTTATTTTAGTGTTTTATATGTTCCCGGAAATTACTTT
GAATCGGTCACCAGCATAATGAGTTCTTGGTGATGCAGCGGTGAGACTTGTAATGAGCAA
AAGCTACCTGGAGTAGCTCTTTTCCCCCCTTTCGTAGGACCCTGTTTTGATTACAGTAAG
ACATCACAGATTACCTGAAACCCCTTCAAGTATAACTAGATCCTCCTTCCTTCCACATCT
AATTGCTTAATAGTTTGAAGAAACTATTGGAAATGGGCATTTTATATGACATGTATGGCT
TTAAAAGATTAAAAATGAAGAAAAAGAAAAACGAGAAGGTTTATGTGGGTCTGTAAGGTA
TGGCTGTGGAAAGATATTGTAGTAGTTTTGACACTATTGTTATTACCTTTAAAATCATTT
ACCCAATAAAATGTTAAAACTGAAAAAAAAAAAAAA

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

More info

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

Help | Less info


               
               160-318, - strand, RNAz p=0.975444
               

               
               358-605, - strand, RNAz p=0.94712

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


               
               160-318, - strand, RNAz p=0.975444
               

               
               358-605, - strand, RNAz p=0.94712

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               185-318, BX101102 Soares fetal liver spleen 1NFLS Homo sapiens cDNA clone 
(emb|BX101102.1|), blast E-value=0, identity=97.01% 
               

               
               185-318, CR849940 Normalized and Subtracted bovine endometrium tissues 
(emb|CR849940.2|), blast E-value=0, identity=97.76% 
               

               
               185-318, 151844 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE667466.1|), 
blast E-value=0, identity=97.76% 
               

               
               185-318, 603392338F1 NIH_MGC_90 Homo sapiens cDNA clone IMAGE (gb|BI868367.1|), 
blast E-value=0, identity=97.01% 
               

               
               185-318, 17000425073010 GRN_EB Homo sapiens cDNA 5', mRNA sequence 
(gb|CN429624.1|), blast E-value=0, identity=97.01% 
               

               
               185-318, LB0176.CR_C17 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DV820446.1|), 
blast E-value=0, identity=97.76%

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


               
               185-318, BX101102 Soares fetal liver spleen 1NFLS Homo sapiens cDNA clone 
(emb|BX101102.1|), blast E-value=0, identity=97.01% 
               

               
               185-318, CR849940 Normalized and Subtracted bovine endometrium tissues 
(emb|CR849940.2|), blast E-value=0, identity=97.76% 
               

               
               185-318, 151844 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE667466.1|), 
blast E-value=0, identity=97.76% 
               

               
               185-318, 603392338F1 NIH_MGC_90 Homo sapiens cDNA clone IMAGE (gb|BI868367.1|), 
blast E-value=0, identity=97.01% 
               

               
               185-318, 17000425073010 GRN_EB Homo sapiens cDNA 5', mRNA sequence 
(gb|CN429624.1|), blast E-value=0, identity=97.01% 
               

               
               185-318, LB0176.CR_C17 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|DV820446.1|), 
blast E-value=0, identity=97.76%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-984, gnl|bosTau2|chrX (18775569-18774582)
               

               
               1-984, gnl|Hg17|chrX (109244547-109243558)
               

               
               1-984, gnl|Mm7|chrX (137516474-137515463)

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


               
               1-984, gnl|bosTau2|chrX (18775569-18774582)
               

               
               1-984, gnl|Hg17|chrX (109244547-109243558)
               

               
               1-984, gnl|Mm7|chrX (137516474-137515463)

Expressed library(ies): 8 entry(ies)

More info

Expressed library(ies): 8 entry(ies)

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               thg (0.253582)
               

               
               fty (0.17584)
               

               
               isp (0.150376)
               

               
               ski (0.146735)
               

               
               lin (0.145603)
               

               
               pla (0.133672)
               

               
               tra (0.123092)
               

               
               jca (0.11396)

Expressed library(ies): 8 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


               
               thg (0.253582)
               

               
               fty (0.17584)
               

               
               isp (0.150376)
               

               
               ski (0.146735)
               

               
               lin (0.145603)
               

               
               pla (0.133672)
               

               
               tra (0.123092)
               

               
               jca (0.11396)

	160-318, - strand, RNAz p=0.975444
	358-605, - strand, RNAz p=0.94712

	185-318, BX101102 Soares fetal liver spleen 1NFLS Homo sapiens cDNA clone (emb\|BX101102.1\|), blast E-value=0, identity=97.01%
	185-318, CR849940 Normalized and Subtracted bovine endometrium tissues (emb\|CR849940.2\|), blast E-value=0, identity=97.76%
	185-318, 151844 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|BE667466.1\|), blast E-value=0, identity=97.76%
	185-318, 603392338F1 NIH_MGC_90 Homo sapiens cDNA clone IMAGE (gb\|BI868367.1\|), blast E-value=0, identity=97.01%
	185-318, 17000425073010 GRN_EB Homo sapiens cDNA 5', mRNA sequence (gb\|CN429624.1\|), blast E-value=0, identity=97.01%
	185-318, LB0176.CR_C17 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb\|DV820446.1\|), blast E-value=0, identity=97.76%

	1-984, gnl\|bosTau2\|chrX (18775569-18774582)
	1-984, gnl\|Hg17\|chrX (109244547-109243558)
	1-984, gnl\|Mm7\|chrX (137516474-137515463)

	thg (0.253582)
	fty (0.17584)
	isp (0.150376)
	ski (0.146735)
	lin (0.145603)
	pla (0.133672)
	tra (0.123092)
	jca (0.11396)