Non-Coding RNA Search

Ss1.1-Pig2-128J15.5

Sequence:


               
               CCATGTCACTGAAAAGGCCTGGGGGGGTGGTATATGGCCCTCTCCCCACCAGGCTAAGGG
GAACACCCCCTTCCCCAGGTCTTTTATTTGTTTTAAGTTATTTTTGCACAAATGACTCTT
TTATATTTAATTCGACTTCATTGCCTCCCTTCTTGAAGCCAGCAGGCTCAGTTTACAAAC
CTGTGAGCTACTGTTGGCTGCTGCCCTCCTTCCCAGTGAAAGGTACAAAGCAATAAGCAT
CATGCATCCTCCCCTCACCCCTCAACACCCCTCTGCCTCTGGCTCAGGTTGCTCAAAGCA
CAGATCCCCTCTTACCCCTGTCCCCAAGTTTGAAACACATAGCCTCGTTTCAAGGTGTAG
CCAGCTTCCCTCTACTTTCCTCTGGGATATAAAAAGGGGGTAAGGGGGCAAAGAGAGCCC
TCTGGGTCTCTCCTCCCATACACACTACACTGCCCCTTCTCCCCCCATCAAAATGCTCAG
AGACGTTGTGATGATGCGACTGAGGATTATGCAACGTGGTCCAACCGGAGCGGCCAGCAT
GACCAGCTGTCCAGGGGCTGCCTCCTGCCTTTTCTTTTGTAAAGACAAGACCCTTGGGAG
TTTTAATTCTGTTTTGTACTTGCCCTGTGGGGCCTCCACTGCTTTTCTATGGGAGACACT
CTTAATTTAACAGATGAGAATATT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CCATGTCACTGAAAAGGCCTGGGGGGGTGGTATATGGCCCTCTCCCCACCAGGCTAAGGG
GAACACCCCCTTCCCCAGGTCTTTTATTTGTTTTAAGTTATTTTTGCACAAATGACTCTT
TTATATTTAATTCGACTTCATTGCCTCCCTTCTTGAAGCCAGCAGGCTCAGTTTACAAAC
CTGTGAGCTACTGTTGGCTGCTGCCCTCCTTCCCAGTGAAAGGTACAAAGCAATAAGCAT
CATGCATCCTCCCCTCACCCCTCAACACCCCTCTGCCTCTGGCTCAGGTTGCTCAAAGCA
CAGATCCCCTCTTACCCCTGTCCCCAAGTTTGAAACACATAGCCTCGTTTCAAGGTGTAG
CCAGCTTCCCTCTACTTTCCTCTGGGATATAAAAAGGGGGTAAGGGGGCAAAGAGAGCCC
TCTGGGTCTCTCCTCCCATACACACTACACTGCCCCTTCTCCCCCCATCAAAATGCTCAG
AGACGTTGTGATGATGCGACTGAGGATTATGCAACGTGGTCCAACCGGAGCGGCCAGCAT
GACCAGCTGTCCAGGGGCTGCCTCCTGCCTTTTCTTTTGTAAAGACAAGACCCTTGGGAG
TTTTAATTCTGTTTTGTACTTGCCCTGTGGGGCCTCCACTGCTTTTCTATGGGAGACACT
CTTAATTTAACAGATGAGAATATT

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

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

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               1-274, - strand, RNAz p=0.996792
               

               
               355-513, + strand, RNAz p=0.912948

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


               
               1-274, - strand, RNAz p=0.996792
               

               
               355-513, + strand, RNAz p=0.912948

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               1-274, CJ015151 full-length enriched swine cDNA library, adult mesenteric 
(dbj|CJ015151.1|), blast E-value=0, identity=97.45% 
               

               
               28-274, 469857 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BI847680.1|), 
blast E-value=0, identity=97.19% 
               

               
               28-274, BE04016A1C03 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN438449.1|), blast E-value=0, identity=97.19% 
               

               
               28-274, 1268761 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN525050.1|), 
blast E-value=0, identity=96.79% 
               

               
               28-274, GL-Cf-1868 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN745076.1|), blast E-value=0, identity=97.98% 
               

               
               28-274, 001104BEMN045226HT BEMN Bos taurus cDNA, mRNA sequence (gb|DY140214.1|), 
blast E-value=0, identity=96.79%

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


               
               1-274, CJ015151 full-length enriched swine cDNA library, adult mesenteric 
(dbj|CJ015151.1|), blast E-value=0, identity=97.45% 
               

               
               28-274, 469857 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BI847680.1|), 
blast E-value=0, identity=97.19% 
               

               
               28-274, BE04016A1C03 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN438449.1|), blast E-value=0, identity=97.19% 
               

               
               28-274, 1268761 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN525050.1|), 
blast E-value=0, identity=96.79% 
               

               
               28-274, GL-Cf-1868 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN745076.1|), blast E-value=0, identity=97.98% 
               

               
               28-274, 001104BEMN045226HT BEMN Bos taurus cDNA, mRNA sequence (gb|DY140214.1|), 
blast E-value=0, identity=96.79%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of AK093078, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of AK093078, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-684, gnl|bosTau2|chr5 (34765171-34764487)
               

               
               1-684, gnl|Hg17|chr12 (56209501-56210187)
               

               
               1-684, gnl|Mm7|chr10 (126784029-126783363)

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


               
               1-684, gnl|bosTau2|chr5 (34765171-34764487)
               

               
               1-684, gnl|Hg17|chr12 (56209501-56210187)
               

               
               1-684, gnl|Mm7|chr10 (126784029-126783363)

Expressed library(ies): 11 entry(ies)

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Expressed library(ies): 11 entry(ies)

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               elu (0.385356)
               

               
               med (0.348756)
               

               
               fce (0.271592)
               

               
               tes (0.207814)
               

               
               col (0.195008)
               

               
               fbs (0.175346)
               

               
               fhi (0.169578)
               

               
               cki (0.165235)
               

               
               csp (0.161186)
               

               
               cli (0.152812)
               

               
               pgl (0.118483)

Expressed library(ies): 11 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


               
               elu (0.385356)
               

               
               med (0.348756)
               

               
               fce (0.271592)
               

               
               tes (0.207814)
               

               
               col (0.195008)
               

               
               fbs (0.175346)
               

               
               fhi (0.169578)
               

               
               cki (0.165235)
               

               
               csp (0.161186)
               

               
               cli (0.152812)
               

               
               pgl (0.118483)

	1-274, - strand, RNAz p=0.996792
	355-513, + strand, RNAz p=0.912948

	1-274, CJ015151 full-length enriched swine cDNA library, adult mesenteric (dbj\|CJ015151.1\|), blast E-value=0, identity=97.45%
	28-274, 469857 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb\|BI847680.1\|), blast E-value=0, identity=97.19%
	28-274, BE04016A1C03 BE04 Normalized and Subtracted bovine embryonic and (gb\|CN438449.1\|), blast E-value=0, identity=97.19%
	28-274, 1268761 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN525050.1\|), blast E-value=0, identity=96.79%
	28-274, GL-Cf-1868 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue (gb\|DN745076.1\|), blast E-value=0, identity=97.98%
	28-274, 001104BEMN045226HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY140214.1\|), blast E-value=0, identity=96.79%

	1-684, gnl\|bosTau2\|chr5 (34765171-34764487)
	1-684, gnl\|Hg17\|chr12 (56209501-56210187)
	1-684, gnl\|Mm7\|chr10 (126784029-126783363)

	elu (0.385356)
	med (0.348756)
	fce (0.271592)
	tes (0.207814)
	col (0.195008)
	fbs (0.175346)
	fhi (0.169578)
	cki (0.165235)
	csp (0.161186)
	cli (0.152812)
	pgl (0.118483)