Non-Coding RNA Search

Ss1.1-rnca09b_p7.5

Sequence:


               
               AGTCCACCTGCTTATCTCGTAGCTTTTTAAAAAAATTAAGTCAAGAGGGAGAAAAGAAAA
AAAAAAAAAAAAAAAGAAAACTGCAAACCTAGAAAACTTTTTAGAGGAAAACTATTTAAA
ACTGTCAGATCCTGACCAGCGCCCACCCAGCCCCCTTCCTGTGATTCTGTGCCTTGAGTG
TGTCTGCGTGTTTACACCCATCCCTCTGCTGGTTGCCCCCCTGTGTGGGCAGTGCCCTTG
CCCTGCCCTCCACAGAATTGGGTTCCAAGGGCTGTTCCAGACAACTGCCAATGTCACTGA
GGGCCCCGCTCCAGCGGCCCTGGGCCCTGGCTCCATTAACCTAAATGTAGCTCCTTAGCG
CTAACCTAGGAACCGCCGCTGCCTGCTGAGGGGCCCTGCCCCTCATGCCCTCGCCCCAGG
CCCGGGTCCTTCAGCGTTGAACACTTCCTTGCTTTTTTCACATGTTTTATGGAATTGTTC
ACCTGGTTTGAAATAATAAAATGTAGAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AGTCCACCTGCTTATCTCGTAGCTTTTTAAAAAAATTAAGTCAAGAGGGAGAAAAGAAAA
AAAAAAAAAAAAAAAGAAAACTGCAAACCTAGAAAACTTTTTAGAGGAAAACTATTTAAA
ACTGTCAGATCCTGACCAGCGCCCACCCAGCCCCCTTCCTGTGATTCTGTGCCTTGAGTG
TGTCTGCGTGTTTACACCCATCCCTCTGCTGGTTGCCCCCCTGTGTGGGCAGTGCCCTTG
CCCTGCCCTCCACAGAATTGGGTTCCAAGGGCTGTTCCAGACAACTGCCAATGTCACTGA
GGGCCCCGCTCCAGCGGCCCTGGGCCCTGGCTCCATTAACCTAAATGTAGCTCCTTAGCG
CTAACCTAGGAACCGCCGCTGCCTGCTGAGGGGCCCTGCCCCTCATGCCCTCGCCCCAGG
CCCGGGTCCTTCAGCGTTGAACACTTCCTTGCTTTTTTCACATGTTTTATGGAATTGTTC
ACCTGGTTTGAAATAATAAAATGTAGAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

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

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

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               218-496, - strand, RNAz p=0.995274

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


               
               218-496, - strand, RNAz p=0.995274

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               218-496, DB815457 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB815457.1|), blast E-value=0, identity=100% 
               

               
               241-496, LB00462.CR_A07 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb|DT841945.1|), 
blast E-value=0, identity=97.27% 
               

               
               242-496, POSM0605004_J05F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV896671.1|), blast E-value=0, identity=100% 
               

               
               241-496, 000927BEMN026623HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY052179.1|), blast E-value=0, identity=97.27% 
               

               
               241-496, sh1-eo10_l0.s2 adult sheep fracture callus pool Ovis aries cDNA, 
(gb|DY485794.1|), blast E-value=0, identity=97.27% 
               

               
               241-496, sh3P0036P21_F.ab1 adult sheep fracture callus 10d Ovis aries cDNA, 
(gb|DY517189.1|), blast E-value=0, identity=97.27%

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


               
               218-496, DB815457 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB815457.1|), blast E-value=0, identity=100% 
               

               
               241-496, LB00462.CR_A07 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb|DT841945.1|), 
blast E-value=0, identity=97.27% 
               

               
               242-496, POSM0605004_J05F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV896671.1|), blast E-value=0, identity=100% 
               

               
               241-496, 000927BEMN026623HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY052179.1|), blast E-value=0, identity=97.27% 
               

               
               241-496, sh1-eo10_l0.s2 adult sheep fracture callus pool Ovis aries cDNA, 
(gb|DY485794.1|), blast E-value=0, identity=97.27% 
               

               
               241-496, sh3P0036P21_F.ab1 adult sheep fracture callus 10d Ovis aries cDNA, 
(gb|DY517189.1|), blast E-value=0, identity=97.27%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-523, gnl|bosTau2|chr22 (38499013-38499536)
               

               
               1-523, gnl|Hg17|chr3 (50271287-50271788)
               

               
               1-523, gnl|Mm7|chr9 (107344071-107343580)

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


               
               1-523, gnl|bosTau2|chr22 (38499013-38499536)
               

               
               1-523, gnl|Hg17|chr3 (50271287-50271788)
               

               
               1-523, gnl|Mm7|chr9 (107344071-107343580)

Expressed library(ies): 22 entry(ies)

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Expressed library(ies): 22 entry(ies)

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               fbs (0.526039)
               

               
               cag (0.453583)
               

               
               nca (0.410621)
               

               
               pla (0.401016)
               

               
               nlu (0.383362)
               

               
               nep (0.36785)
               

               
               cly (0.361925)
               

               
               fhi (0.339155)
               

               
               csp (0.322373)
               

               
               lnt (0.284616)
               

               
               fcc (0.197785)
               

               
               col (0.195008)
               

               
               fty (0.17584)
               

               
               cut (0.169924)
               

               
               nco (0.161734)
               

               
               csk (0.140746)
               

               
               eep (0.122564)
               

               
               med (0.116252)
               

               
               ecc (0.115035)
               

               
               nbm (0.0993246)
               

               
               jej (0.0989218)
               

               
               eje (0.0988338)

Expressed library(ies): 22 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


               
               fbs (0.526039)
               

               
               cag (0.453583)
               

               
               nca (0.410621)
               

               
               pla (0.401016)
               

               
               nlu (0.383362)
               

               
               nep (0.36785)
               

               
               cly (0.361925)
               

               
               fhi (0.339155)
               

               
               csp (0.322373)
               

               
               lnt (0.284616)
               

               
               fcc (0.197785)
               

               
               col (0.195008)
               

               
               fty (0.17584)
               

               
               cut (0.169924)
               

               
               nco (0.161734)
               

               
               csk (0.140746)
               

               
               eep (0.122564)
               

               
               med (0.116252)
               

               
               ecc (0.115035)
               

               
               nbm (0.0993246)
               

               
               jej (0.0989218)
               

               
               eje (0.0988338)

	218-496, DB815457 full-length enriched swine cDNA library, adult ovary Sus (dbj\|DB815457.1\|), blast E-value=0, identity=100%
	241-496, LB00462.CR_A07 GC_BGC-04 Bos taurus cDNA clone IMAGE (gb\|DT841945.1\|), blast E-value=0, identity=97.27%
	242-496, POSM0605004_J05F porcine skeletal muscle cDNA library (PoSM) Sus (gb\|DV896671.1\|), blast E-value=0, identity=100%
	241-496, 000927BEMN026623HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY052179.1\|), blast E-value=0, identity=97.27%
	241-496, sh1-eo10_l0.s2 adult sheep fracture callus pool Ovis aries cDNA, (gb\|DY485794.1\|), blast E-value=0, identity=97.27%
	241-496, sh3P0036P21_F.ab1 adult sheep fracture callus 10d Ovis aries cDNA, (gb\|DY517189.1\|), blast E-value=0, identity=97.27%

	1-523, gnl\|bosTau2\|chr22 (38499013-38499536)
	1-523, gnl\|Hg17\|chr3 (50271287-50271788)
	1-523, gnl\|Mm7\|chr9 (107344071-107343580)

	fbs (0.526039)
	cag (0.453583)
	nca (0.410621)
	pla (0.401016)
	nlu (0.383362)
	nep (0.36785)
	cly (0.361925)
	fhi (0.339155)
	csp (0.322373)
	lnt (0.284616)
	fcc (0.197785)
	col (0.195008)
	fty (0.17584)
	cut (0.169924)
	nco (0.161734)
	csk (0.140746)
	eep (0.122564)
	med (0.116252)
	ecc (0.115035)
	nbm (0.0993246)
	jej (0.0989218)
	eje (0.0988338)