Non-Coding RNA Search

Ss1.1-Pig4-TMW8038N19.3

Sequence:


               
               AAGGGACAGGGGGGATCGAGATCGGGAGAGGGAGAGGGATCGGGAACGAGGCAGGGAGAG
GGACCGCAGGGACACCAAGCGCCACAGCAGGAGCCGGAGTCGGAGCACACCTGTGCGGGA
CCGGGGTGGGCGCCGCTAGCCAGAAAACACTAGGGAGAGCTGCAGGCGTCAGCCACCCTG
CCCCAGGGGGTTCAAGGCCACAGAGGGATAGGTACAATCTCCACCACCCTGGAACCAGGG
GTCTTTCACATCTTTTGCCCAGTGATGAAGTATGGCTGCCACCTGTCCCCACATACCAAA
TGGAGCAGTGGCCAAGAATCTTCCCCACCACCACCCCGGTAATCTTATCTCTTGGGACTT
AGCCCTCTCCTCTCTCTCATTTCCCATTAAGTCTGTGAGAGGGAAGAACTAGGTGAAGGA
GGGAGGTGGTTGGCCCAGAGGTCGGGAGCAGCCAGGAGCCCCAAGCCTCTTGTTTTTCCT
CCATCCTGCTCACCACCTGCTTTGGTACTCGCACCCACTTCTTGGGAACAGCCGGGGCCA
GGACTGGGTCACCTATGAGCTGAATCAGCATCTCCTCCTGAGTCCCAGGGCCCCTGCAGT
TCCCAGTCTCTTCAGTCCTGCAGCCCTTGCCTCCTGTCCACCGGTTCCACTTTATATCCA
CCTTTTCCTTTTGTTCAATTTTTATTTTTATTTTTTTTTATTATTAAATGATGTGGTCTA
TGGAAAATAATAAATCTGACTTAGTTTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AAGGGACAGGGGGGATCGAGATCGGGAGAGGGAGAGGGATCGGGAACGAGGCAGGGAGAG
GGACCGCAGGGACACCAAGCGCCACAGCAGGAGCCGGAGTCGGAGCACACCTGTGCGGGA
CCGGGGTGGGCGCCGCTAGCCAGAAAACACTAGGGAGAGCTGCAGGCGTCAGCCACCCTG
CCCCAGGGGGTTCAAGGCCACAGAGGGATAGGTACAATCTCCACCACCCTGGAACCAGGG
GTCTTTCACATCTTTTGCCCAGTGATGAAGTATGGCTGCCACCTGTCCCCACATACCAAA
TGGAGCAGTGGCCAAGAATCTTCCCCACCACCACCCCGGTAATCTTATCTCTTGGGACTT
AGCCCTCTCCTCTCTCTCATTTCCCATTAAGTCTGTGAGAGGGAAGAACTAGGTGAAGGA
GGGAGGTGGTTGGCCCAGAGGTCGGGAGCAGCCAGGAGCCCCAAGCCTCTTGTTTTTCCT
CCATCCTGCTCACCACCTGCTTTGGTACTCGCACCCACTTCTTGGGAACAGCCGGGGCCA
GGACTGGGTCACCTATGAGCTGAATCAGCATCTCCTCCTGAGTCCCAGGGCCCCTGCAGT
TCCCAGTCTCTTCAGTCCTGCAGCCCTTGCCTCCTGTCCACCGGTTCCACTTTATATCCA
CCTTTTCCTTTTGTTCAATTTTTATTTTTATTTTTTTTTATTATTAAATGATGTGGTCTA
TGGAAAATAATAAATCTGACTTAGTTTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

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

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

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               195-670, - strand, RNAz p=0.999546

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


               
               195-670, - strand, RNAz p=0.999546

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               407-492, + strand, RNAmicro p=0.990095
               

               
               331-458, - strand, RNAmicro p=0.960058

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


               
               407-492, + strand, RNAmicro p=0.990095
               

               
               331-458, - strand, RNAmicro p=0.960058

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               315-670, POSM0100014_B05F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|BM190581.1|), blast E-value=0, identity=100% 
               

               
               346-314, DG32-27f14 DG32-liver Canis familiaris cDNA 3', mRNA sequence 
(gb|CO704347.1|), blast E-value=3e-39, identity=92.5% 
               

               
               346-314, DG14-110i17 DG14-muscle Canis familiaris cDNA 3', mRNA sequence 
(gb|CO708541.1|), blast E-value=6e-16, identity=90.12% 
               

               
               346-314, DG14-70m11 DG14-muscle Canis familiaris cDNA 3', mRNA sequence 
(gb|CO718795.1|), blast E-value=8.00141e-43, identity=94.17% 
               

               
               346-314, DOG_EST_P121C06 Canis familiaris testis cDNA Canis familiaris cDNA, 
(gb|CX992556.1|), blast E-value=8.00141e-43, identity=94.17% 
               

               
               346-314, GL-Cf-3046 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN746254.1|), blast E-value=8.00141e-43, identity=94.17%

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


               
               315-670, POSM0100014_B05F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|BM190581.1|), blast E-value=0, identity=100% 
               

               
               346-314, DG32-27f14 DG32-liver Canis familiaris cDNA 3', mRNA sequence 
(gb|CO704347.1|), blast E-value=3e-39, identity=92.5% 
               

               
               346-314, DG14-110i17 DG14-muscle Canis familiaris cDNA 3', mRNA sequence 
(gb|CO708541.1|), blast E-value=6e-16, identity=90.12% 
               

               
               346-314, DG14-70m11 DG14-muscle Canis familiaris cDNA 3', mRNA sequence 
(gb|CO718795.1|), blast E-value=8.00141e-43, identity=94.17% 
               

               
               346-314, DOG_EST_P121C06 Canis familiaris testis cDNA Canis familiaris cDNA, 
(gb|CX992556.1|), blast E-value=8.00141e-43, identity=94.17% 
               

               
               346-314, GL-Cf-3046 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN746254.1|), blast E-value=8.00141e-43, identity=94.17%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               3-750, gnl|bosTau2|chr10 (14000355-14001101)
               

               
               3-750, gnl|Hg17|chr14 (22598333-22597614)
               

               
               3-750, gnl|Mm7|chr14 (49509671-49508974)

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


               
               3-750, gnl|bosTau2|chr10 (14000355-14001101)
               

               
               3-750, gnl|Hg17|chr14 (22598333-22597614)
               

               
               3-750, gnl|Mm7|chr14 (49509671-49508974)

Expressed library(ies): 30 entry(ies)

More info

Expressed library(ies): 30 entry(ies)

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               nca (0.410621)
               

               
               elu (0.385356)
               

               
               med (0.348756)
               

               
               fhi (0.339155)
               

               
               nje (0.33184)
               

               
               eli (0.303628)
               

               
               fce (0.271592)
               

               
               pla (0.267344)
               

               
               ece (0.229305)
               

               
               fcc (0.197785)
               

               
               nep (0.183925)
               

               
               fty (0.17584)
               

               
               ton (0.1755)
               

               
               fbs (0.175346)
               

               
               mcp (0.170648)
               

               
               eye (0.170503)
               

               
               cki (0.165235)
               

               
               nco (0.161734)
               

               
               cag (0.151194)
               

               
               lnt (0.142308)
               

               
               csk (0.140746)
               

               
               hlv (0.139256)
               

               
               ese (0.126502)
               

               
               eep (0.122564)
               

               
               eru (0.120048)
               

               
               pgl (0.118483)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)
               

               
               jca (0.11396)
               

               
               nbm (0.0993246)

Expressed library(ies): 30 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


               
               nca (0.410621)
               

               
               elu (0.385356)
               

               
               med (0.348756)
               

               
               fhi (0.339155)
               

               
               nje (0.33184)
               

               
               eli (0.303628)
               

               
               fce (0.271592)
               

               
               pla (0.267344)
               

               
               ece (0.229305)
               

               
               fcc (0.197785)
               

               
               nep (0.183925)
               

               
               fty (0.17584)
               

               
               ton (0.1755)
               

               
               fbs (0.175346)
               

               
               mcp (0.170648)
               

               
               eye (0.170503)
               

               
               cki (0.165235)
               

               
               nco (0.161734)
               

               
               cag (0.151194)
               

               
               lnt (0.142308)
               

               
               csk (0.140746)
               

               
               hlv (0.139256)
               

               
               ese (0.126502)
               

               
               eep (0.122564)
               

               
               eru (0.120048)
               

               
               pgl (0.118483)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)
               

               
               jca (0.11396)
               

               
               nbm (0.0993246)

	407-492, + strand, RNAmicro p=0.990095
	331-458, - strand, RNAmicro p=0.960058

	315-670, POSM0100014_B05F porcine skeletal muscle cDNA library (PoSM) Sus (gb\|BM190581.1\|), blast E-value=0, identity=100%
	346-314, DG32-27f14 DG32-liver Canis familiaris cDNA 3', mRNA sequence (gb\|CO704347.1\|), blast E-value=3e-39, identity=92.5%
	346-314, DG14-110i17 DG14-muscle Canis familiaris cDNA 3', mRNA sequence (gb\|CO708541.1\|), blast E-value=6e-16, identity=90.12%
	346-314, DG14-70m11 DG14-muscle Canis familiaris cDNA 3', mRNA sequence (gb\|CO718795.1\|), blast E-value=8.00141e-43, identity=94.17%
	346-314, DOG_EST_P121C06 Canis familiaris testis cDNA Canis familiaris cDNA, (gb\|CX992556.1\|), blast E-value=8.00141e-43, identity=94.17%
	346-314, GL-Cf-3046 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue (gb\|DN746254.1\|), blast E-value=8.00141e-43, identity=94.17%

	3-750, gnl\|bosTau2\|chr10 (14000355-14001101)
	3-750, gnl\|Hg17\|chr14 (22598333-22597614)
	3-750, gnl\|Mm7\|chr14 (49509671-49508974)

	nca (0.410621)
	elu (0.385356)
	med (0.348756)
	fhi (0.339155)
	nje (0.33184)
	eli (0.303628)
	fce (0.271592)
	pla (0.267344)
	ece (0.229305)
	fcc (0.197785)
	nep (0.183925)
	fty (0.17584)
	ton (0.1755)
	fbs (0.175346)
	mcp (0.170648)
	eye (0.170503)
	cki (0.165235)
	nco (0.161734)
	cag (0.151194)
	lnt (0.142308)
	csk (0.140746)
	hlv (0.139256)
	ese (0.126502)
	eep (0.122564)
	eru (0.120048)
	pgl (0.118483)
	ebs (0.118301)
	ecc (0.115035)
	jca (0.11396)
	nbm (0.0993246)