Non-Coding RNA Search

Ss1.1-Pig4-TMW8062A19.5

Sequence:


               
               GTGCTTTGCAGTAACCCTCTGCAAGTTTCCGGAACACATTGGCTCTGTCAGCATCTGTAA
TTGCACATTATTCATCAGGTATTTATAGCAAATCATACTGTAAAAAGAGGTAGCATGATA
TGCCGAAACATGTACTAGGCCAGGCGTCCAGACCTGATTGCTGGTCTTGGTTTTGCCATT
AACGTGCTGCATGACCTCGGGAAAATTAGGAGCCTAAATGAGGGAGGTGGCCTAGACCAT
CTCGAAGAGCCCTTTAAGTCTAGAAATTTACCCTGTCACCTGGAGAGCCTGTCAGGCATA
GGGAATCGAGAAAAGGGAAATGTTTTCCGTTTTCTTTTTTATTTTGGTTATGCTTAAATA
TGAATGTAATTACCAAAAGATGTAGAAGTGCATGTGCTTCGGAGGGTTCGTATTGAGCTT
TCACAGTATTCATTTTTCAACTCAAGGCAATGGCTTTTTACACCGACTCTAGTCCATAAA
CGGGTCTTATGACATCCATGGAGTCGTAGCAAGACATGCTTAGTGTGTATTTCTCTCTTT
GAGACACTGTCATTTCTACCAGAAATTTCCAGAGCATTATGTAAGTAGAAAAAAACGCAA
ACAAGCTGTTAAAGATCTTGGATCCCATTATATAGTATGTATCGCTGAAATCAGCATCTG
TAATTCAATCACTTTTTCTCTTTTATCCTCTAACCAAAAAATTGTTTAATTTTGCATCCC
AAATGTTTTTAATCTTTGTATATTTTTTAAAAATCTTTTTCTCCTCATCATTGCCTTTTT
TGTGGTTGTAAATAGACTTACTTGCACTTTGAAGATGAGTTACTCCTTGTCATCTTATAA
ATATGTGATATGGTAATTTTCATAACAGATGTCAGTTTTGAGCCAAGAAATGGTGATTTG
TTTATAAGAAAAAAACTGGCTTCATTTCTGTGAAATTGCTCTTTGAAAATTTCTTTTTAC
ACGTGTAAGCCAACTGAGATACCGTGATGGTGTTGATTTCTTTCAATGATGCTTACCATC
TATTTTAGCCACTGAGCCTTTTATTATTTGTCTATTTGTAAAGTTTATTTGTCTTAACTC
ATTTAATAAATATACTGTTTATCT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GTGCTTTGCAGTAACCCTCTGCAAGTTTCCGGAACACATTGGCTCTGTCAGCATCTGTAA
TTGCACATTATTCATCAGGTATTTATAGCAAATCATACTGTAAAAAGAGGTAGCATGATA
TGCCGAAACATGTACTAGGCCAGGCGTCCAGACCTGATTGCTGGTCTTGGTTTTGCCATT
AACGTGCTGCATGACCTCGGGAAAATTAGGAGCCTAAATGAGGGAGGTGGCCTAGACCAT
CTCGAAGAGCCCTTTAAGTCTAGAAATTTACCCTGTCACCTGGAGAGCCTGTCAGGCATA
GGGAATCGAGAAAAGGGAAATGTTTTCCGTTTTCTTTTTTATTTTGGTTATGCTTAAATA
TGAATGTAATTACCAAAAGATGTAGAAGTGCATGTGCTTCGGAGGGTTCGTATTGAGCTT
TCACAGTATTCATTTTTCAACTCAAGGCAATGGCTTTTTACACCGACTCTAGTCCATAAA
CGGGTCTTATGACATCCATGGAGTCGTAGCAAGACATGCTTAGTGTGTATTTCTCTCTTT
GAGACACTGTCATTTCTACCAGAAATTTCCAGAGCATTATGTAAGTAGAAAAAAACGCAA
ACAAGCTGTTAAAGATCTTGGATCCCATTATATAGTATGTATCGCTGAAATCAGCATCTG
TAATTCAATCACTTTTTCTCTTTTATCCTCTAACCAAAAAATTGTTTAATTTTGCATCCC
AAATGTTTTTAATCTTTGTATATTTTTTAAAAATCTTTTTCTCCTCATCATTGCCTTTTT
TGTGGTTGTAAATAGACTTACTTGCACTTTGAAGATGAGTTACTCCTTGTCATCTTATAA
ATATGTGATATGGTAATTTTCATAACAGATGTCAGTTTTGAGCCAAGAAATGGTGATTTG
TTTATAAGAAAAAAACTGGCTTCATTTCTGTGAAATTGCTCTTTGAAAATTTCTTTTTAC
ACGTGTAAGCCAACTGAGATACCGTGATGGTGTTGATTTCTTTCAATGATGCTTACCATC
TATTTTAGCCACTGAGCCTTTTATTATTTGTCTATTTGTAAAGTTTATTTGTCTTAACTC
ATTTAATAAATATACTGTTTATCT

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

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

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               80-236, - strand, RNAz p=0.999007
               

               
               504-612, + strand, RNAz p=0.510071

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


               
               80-236, - strand, RNAz p=0.999007
               

               
               504-612, + strand, RNAz p=0.510071

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               91-206, BE04025B2F03 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN441386.1|), blast E-value=4e-17, identity=85.34% 
               

               
               80-206, CT02033A2F07 Equine Articular Cartilage cDNA Library Equus caballus 
(gb|CX602677.1|), blast E-value=3e-33, identity=89.76% 
               

               
               80-206, nae16b04.y1 Dog eye eye minus lens and cornea. Unnormalized (nae) 
(gb|DN877764.1|), blast E-value=3e-21, identity=86.61% 
               

               
               91-206, Hw_Fat_45_050805_F03 Bos taurus CF-24-HW fat cDNA library Bos 
(gb|DV776441.1|), blast E-value=4e-17, identity=85.34% 
               

               
               91-206, Hw_loin_8_050812_G11 Bos taurus CF-24-HW loin cDNA library Bos 
(gb|DV797023.1|), blast E-value=4e-17, identity=85.34% 
               

               
               91-206, LB02725.CR_M23 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|DV893076.1|), 
blast E-value=4e-17, identity=85.34%

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


               
               91-206, BE04025B2F03 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN441386.1|), blast E-value=4e-17, identity=85.34% 
               

               
               80-206, CT02033A2F07 Equine Articular Cartilage cDNA Library Equus caballus 
(gb|CX602677.1|), blast E-value=3e-33, identity=89.76% 
               

               
               80-206, nae16b04.y1 Dog eye eye minus lens and cornea. Unnormalized (nae) 
(gb|DN877764.1|), blast E-value=3e-21, identity=86.61% 
               

               
               91-206, Hw_Fat_45_050805_F03 Bos taurus CF-24-HW fat cDNA library Bos 
(gb|DV776441.1|), blast E-value=4e-17, identity=85.34% 
               

               
               91-206, Hw_loin_8_050812_G11 Bos taurus CF-24-HW loin cDNA library Bos 
(gb|DV797023.1|), blast E-value=4e-17, identity=85.34% 
               

               
               91-206, LB02725.CR_M23 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|DV893076.1|), 
blast E-value=4e-17, identity=85.34%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_001001323, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_001001323, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               4-927, gnl|bosTau2|chr5 (12510101-12511030)
               

               
               4-927, gnl|Hg17|chr12 (88485396-88484480)
               

               
               4-927, gnl|Mm7|chr10 (98587462-98588443)

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


               
               4-927, gnl|bosTau2|chr5 (12510101-12511030)
               

               
               4-927, gnl|Hg17|chr12 (88485396-88484480)
               

               
               4-927, gnl|Mm7|chr10 (98587462-98588443)

Expressed library(ies): 13 entry(ies)

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Expressed library(ies): 13 entry(ies)

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               bfe (0.299715)
               

               
               lin (0.291206)
               

               
               fco (0.157208)
               

               
               tbr (0.154178)
               

               
               spl (0.143184)
               

               
               nca (0.136874)
               

               
               ssp (0.13552)
               

               
               lyg (0.133103)
               

               
               ese (0.126502)
               

               
               bla (0.124347)
               

               
               tra (0.123092)
               

               
               ecc (0.115035)
               

               
               jca (0.11396)

Expressed library(ies): 13 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


               
               bfe (0.299715)
               

               
               lin (0.291206)
               

               
               fco (0.157208)
               

               
               tbr (0.154178)
               

               
               spl (0.143184)
               

               
               nca (0.136874)
               

               
               ssp (0.13552)
               

               
               lyg (0.133103)
               

               
               ese (0.126502)
               

               
               bla (0.124347)
               

               
               tra (0.123092)
               

               
               ecc (0.115035)
               

               
               jca (0.11396)

	80-236, - strand, RNAz p=0.999007
	504-612, + strand, RNAz p=0.510071

	91-206, BE04025B2F03 BE04 Normalized and Subtracted bovine embryonic and (gb\|CN441386.1\|), blast E-value=4e-17, identity=85.34%
	80-206, CT02033A2F07 Equine Articular Cartilage cDNA Library Equus caballus (gb\|CX602677.1\|), blast E-value=3e-33, identity=89.76%
	80-206, nae16b04.y1 Dog eye eye minus lens and cornea. Unnormalized (nae) (gb\|DN877764.1\|), blast E-value=3e-21, identity=86.61%
	91-206, Hw_Fat_45_050805_F03 Bos taurus CF-24-HW fat cDNA library Bos (gb\|DV776441.1\|), blast E-value=4e-17, identity=85.34%
	91-206, Hw_loin_8_050812_G11 Bos taurus CF-24-HW loin cDNA library Bos (gb\|DV797023.1\|), blast E-value=4e-17, identity=85.34%
	91-206, LB02725.CR_M23 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb\|DV893076.1\|), blast E-value=4e-17, identity=85.34%

	4-927, gnl\|bosTau2\|chr5 (12510101-12511030)
	4-927, gnl\|Hg17\|chr12 (88485396-88484480)
	4-927, gnl\|Mm7\|chr10 (98587462-98588443)

	bfe (0.299715)
	lin (0.291206)
	fco (0.157208)
	tbr (0.154178)
	spl (0.143184)
	nca (0.136874)
	ssp (0.13552)
	lyg (0.133103)
	ese (0.126502)
	bla (0.124347)
	tra (0.123092)
	ecc (0.115035)
	jca (0.11396)