Non-Coding RNA Search

Ss1.1-Liv1-LVR010050F09.5

Sequence:


               
               CTCCTCACAGTACCGCGACACCTCCTCCGCCCGCGTAGCTCCAGCCATGGCTCTGTAGCC
GCGACCCCTCTGTGCCCCCGGCCAGTCGCCGTGCTCACCGCGCCTGCGCTCTCCGCTCCT
GCCGTCTTTCTTCAGCTGAGGCCACCGCCGCCTCTTCTTTCCGCAGCCATGGAGTCCTCC
ACTCTCGCCTTGGTGCCCGTCTTCGCCCAGCTGAGTAATCTCCAGAGCCTCCTGCCAGCT
GTTGGTGCAGCCTCCTTCATTGCCATCTGTGCCCCGCACCCGAGCTGCAGCCATGTCACT
CCTGGCGACCCTGGGGCTGGAGCTGGACAGGACCCTGCTCCCAGCTAGCGGGCTGGGCTG
GCTCGTAGACTATGGGAAACTCCCCCTGGCCCCTGCCCCCCTGGGCCCCTATGAGGTCCT
TGGGGGAGCCCTGGAGGGCGGGCTTCCAGGGGGGGGAGAGCCCCTGGCAGGTAAGGGTAG
GCAAAGAATGGAGGTGGAGTCATGGAGTGAGCTGGGGTCAGGGGGCAGGGGAGAAGAAGA
ATTCATTCATTCGTGTATTTATTCCTTCAATAAATATTTCCTGAGCAC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTCCTCACAGTACCGCGACACCTCCTCCGCCCGCGTAGCTCCAGCCATGGCTCTGTAGCC
GCGACCCCTCTGTGCCCCCGGCCAGTCGCCGTGCTCACCGCGCCTGCGCTCTCCGCTCCT
GCCGTCTTTCTTCAGCTGAGGCCACCGCCGCCTCTTCTTTCCGCAGCCATGGAGTCCTCC
ACTCTCGCCTTGGTGCCCGTCTTCGCCCAGCTGAGTAATCTCCAGAGCCTCCTGCCAGCT
GTTGGTGCAGCCTCCTTCATTGCCATCTGTGCCCCGCACCCGAGCTGCAGCCATGTCACT
CCTGGCGACCCTGGGGCTGGAGCTGGACAGGACCCTGCTCCCAGCTAGCGGGCTGGGCTG
GCTCGTAGACTATGGGAAACTCCCCCTGGCCCCTGCCCCCCTGGGCCCCTATGAGGTCCT
TGGGGGAGCCCTGGAGGGCGGGCTTCCAGGGGGGGGAGAGCCCCTGGCAGGTAAGGGTAG
GCAAAGAATGGAGGTGGAGTCATGGAGTGAGCTGGGGTCAGGGGGCAGGGGAGAAGAAGA
ATTCATTCATTCGTGTATTTATTCCTTCAATAAATATTTCCTGAGCAC

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

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

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               291-476, - strand, RNAz p=0.997967
               

               
               335-494, + strand, RNAz p=0.995467

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


               
               291-476, - strand, RNAz p=0.997967
               

               
               335-494, + strand, RNAz p=0.995467

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               412-526, + strand, RNAmicro p=0.999821

Predicted microRNA(s): 1 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


               
               412-526, + strand, RNAmicro p=0.999821

Similar Transcript(s): 12 entry(ies)

More info

Similar Transcript(s): 12 entry(ies)

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               291-448, LB01740.CR_H03 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|EE335233.1|), 
blast E-value=0.00000000001, identity=100% 
               

               
               291-448, LB02956.CR_J18 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE356602.1|), 
blast E-value=0.00000000001, identity=100% 
               

               
               291-448, LB02959.CR_B15 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE357427.1|), 
blast E-value=0.00000000001, identity=100% 
               

               
               291-448, LB02961.CR_D22 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE358133.1|), 
blast E-value=0.00000000001, identity=100% 
               

               
               291-381, LB02982.CR_F20 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE362671.1|), 
blast E-value=1.00053e-42, identity=100% 
               

               
               291-448, LB03090.CR_K09 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE388672.1|), 
blast E-value=0.00000000001, identity=100% 
               

               
               410-381, BP446046 full-length enriched swine cDNA library, adult liver Sus 
(dbj|BP446046.1|), blast E-value=2e-16, identity=100% 
               

               
               410-381, DB808308 full-length enriched swine cDNA library, adult liver Sus 
(dbj|DB808308.1|), blast E-value=2e-16, identity=100% 
               

               
               410-381, LB01630.CR_O22 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT816700.1|), 
blast E-value=2e-16, identity=100% 
               

               
               335-448, LB02961.CR_D22 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE358133.1|), 
blast E-value=0.00000000001, identity=100% 
               

               
               335-381, LB02982.CR_F20 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE362671.1|), 
blast E-value=2e-16, identity=100% 
               

               
               335-448, LB03090.CR_K09 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE388672.1|), 
blast E-value=0.00000000001, identity=100%

Similar Transcript(s): 12 entry(ies)

Help | Less info

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


               
               291-448, LB01740.CR_H03 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb|EE335233.1|), 
blast E-value=0.00000000001, identity=100% 
               

               
               291-448, LB02956.CR_J18 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE356602.1|), 
blast E-value=0.00000000001, identity=100% 
               

               
               291-448, LB02959.CR_B15 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE357427.1|), 
blast E-value=0.00000000001, identity=100% 
               

               
               291-448, LB02961.CR_D22 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE358133.1|), 
blast E-value=0.00000000001, identity=100% 
               

               
               291-381, LB02982.CR_F20 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE362671.1|), 
blast E-value=1.00053e-42, identity=100% 
               

               
               291-448, LB03090.CR_K09 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE388672.1|), 
blast E-value=0.00000000001, identity=100% 
               

               
               410-381, BP446046 full-length enriched swine cDNA library, adult liver Sus 
(dbj|BP446046.1|), blast E-value=2e-16, identity=100% 
               

               
               410-381, DB808308 full-length enriched swine cDNA library, adult liver Sus 
(dbj|DB808308.1|), blast E-value=2e-16, identity=100% 
               

               
               410-381, LB01630.CR_O22 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT816700.1|), 
blast E-value=2e-16, identity=100% 
               

               
               335-448, LB02961.CR_D22 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE358133.1|), 
blast E-value=0.00000000001, identity=100% 
               

               
               335-381, LB02982.CR_F20 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE362671.1|), 
blast E-value=2e-16, identity=100% 
               

               
               335-448, LB03090.CR_K09 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE388672.1|), 
blast E-value=0.00000000001, identity=100%

Aligned organism(s): 23 entry(ies)

More info

Aligned organism(s): 23 entry(ies)

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               1-175, gnl|bosTau2|chr18 (48954159-48954333)
               

               
               1-175, gnl|canFam2|chr1 (109524589-109524343)
               

               
               1-175, gnl|echTel1|scaffold_294984 (3159-2900)
               

               
               1-175, gnl|hg17|chr19 (55124233-55124477)
               

               
               1-175, gnl|Hg17|chr19 (55124299-55124471)
               

               
               1-175, gnl|mm7|chr7 (40991164-40990918)
               

               
               1-175, gnl|Mm7|chr7 (40991096-40990922)
               

               
               1-175, gnl|monDom2|scaffold_105 (3920268-3920015)
               

               
               1-175, gnl|panTro1|chr20 (52487575-52487819)
               

               
               1-175, gnl|rheMac2|chr19 (56208401-56208646)
               

               
               1-175, gnl|rn3|chr1 (95366344-95366101)
               


               
               176-551, gnl|bosTau2|chr18 (48955605-48955970)
               

               
               176-551, gnl|canFam2|chr1 (109522216-109521911)
               

               
               176-551, gnl|echTel1|scaffold_294984 (1261-955)
               

               
               176-551, gnl|hg17|chr19 (55125799-55126104)
               

               
               176-551, gnl|Hg17|chr19 (55125803-55126173)
               

               
               176-551, gnl|loxAfr1|scaffold_30670 (751-458)
               

               
               176-551, gnl|mm7|chr7 (40989807-40989506)
               

               
               176-551, gnl|Mm7|chr7 (40989802-40989437)
               

               
               176-551, gnl|panTro1|chr20 (52489142-52489447)
               

               
               176-551, gnl|rheMac2|chr19 (56209965-56210291)
               

               
               176-551, gnl|rn3|chr1 (95364999-95364697)
               

               
               176-551, gnl|xenTro1|scaffold_1074 (136377-136069)

Aligned organism(s): 23 entry(ies)

Help | Less info

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


               
               1-175, gnl|bosTau2|chr18 (48954159-48954333)
               

               
               1-175, gnl|canFam2|chr1 (109524589-109524343)
               

               
               1-175, gnl|echTel1|scaffold_294984 (3159-2900)
               

               
               1-175, gnl|hg17|chr19 (55124233-55124477)
               

               
               1-175, gnl|Hg17|chr19 (55124299-55124471)
               

               
               1-175, gnl|mm7|chr7 (40991164-40990918)
               

               
               1-175, gnl|Mm7|chr7 (40991096-40990922)
               

               
               1-175, gnl|monDom2|scaffold_105 (3920268-3920015)
               

               
               1-175, gnl|panTro1|chr20 (52487575-52487819)
               

               
               1-175, gnl|rheMac2|chr19 (56208401-56208646)
               

               
               1-175, gnl|rn3|chr1 (95366344-95366101)
               


               
               176-551, gnl|bosTau2|chr18 (48955605-48955970)
               

               
               176-551, gnl|canFam2|chr1 (109522216-109521911)
               

               
               176-551, gnl|echTel1|scaffold_294984 (1261-955)
               

               
               176-551, gnl|hg17|chr19 (55125799-55126104)
               

               
               176-551, gnl|Hg17|chr19 (55125803-55126173)
               

               
               176-551, gnl|loxAfr1|scaffold_30670 (751-458)
               

               
               176-551, gnl|mm7|chr7 (40989807-40989506)
               

               
               176-551, gnl|Mm7|chr7 (40989802-40989437)
               

               
               176-551, gnl|panTro1|chr20 (52489142-52489447)
               

               
               176-551, gnl|rheMac2|chr19 (56209965-56210291)
               

               
               176-551, gnl|rn3|chr1 (95364999-95364697)
               

               
               176-551, gnl|xenTro1|scaffold_1074 (136377-136069)

Expressed library(ies): 1 entry(ies)

More info

Expressed library(ies): 1 entry(ies)

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               eje (0.0988338)

Expressed library(ies): 1 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


               
               eje (0.0988338)

	291-476, - strand, RNAz p=0.997967
	335-494, + strand, RNAz p=0.995467

	291-448, LB01740.CR_H03 GC_BGC-17 Bos taurus cDNA clone IMAGE (gb\|EE335233.1\|), blast E-value=0.00000000001, identity=100%
	291-448, LB02956.CR_J18 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE356602.1\|), blast E-value=0.00000000001, identity=100%
	291-448, LB02959.CR_B15 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE357427.1\|), blast E-value=0.00000000001, identity=100%
	291-448, LB02961.CR_D22 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE358133.1\|), blast E-value=0.00000000001, identity=100%
	291-381, LB02982.CR_F20 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE362671.1\|), blast E-value=1.00053e-42, identity=100%
	291-448, LB03090.CR_K09 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE388672.1\|), blast E-value=0.00000000001, identity=100%
	410-381, BP446046 full-length enriched swine cDNA library, adult liver Sus (dbj\|BP446046.1\|), blast E-value=2e-16, identity=100%
	410-381, DB808308 full-length enriched swine cDNA library, adult liver Sus (dbj\|DB808308.1\|), blast E-value=2e-16, identity=100%
	410-381, LB01630.CR_O22 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb\|DT816700.1\|), blast E-value=2e-16, identity=100%
	335-448, LB02961.CR_D22 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE358133.1\|), blast E-value=0.00000000001, identity=100%
	335-381, LB02982.CR_F20 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE362671.1\|), blast E-value=2e-16, identity=100%
	335-448, LB03090.CR_K09 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE388672.1\|), blast E-value=0.00000000001, identity=100%

	1-175, gnl\|bosTau2\|chr18 (48954159-48954333)
	1-175, gnl\|canFam2\|chr1 (109524589-109524343)
	1-175, gnl\|echTel1\|scaffold_294984 (3159-2900)
	1-175, gnl\|hg17\|chr19 (55124233-55124477)
	1-175, gnl\|Hg17\|chr19 (55124299-55124471)
	1-175, gnl\|mm7\|chr7 (40991164-40990918)
	1-175, gnl\|Mm7\|chr7 (40991096-40990922)
	1-175, gnl\|monDom2\|scaffold_105 (3920268-3920015)
	1-175, gnl\|panTro1\|chr20 (52487575-52487819)
	1-175, gnl\|rheMac2\|chr19 (56208401-56208646)
	1-175, gnl\|rn3\|chr1 (95366344-95366101)

	176-551, gnl\|bosTau2\|chr18 (48955605-48955970)
	176-551, gnl\|canFam2\|chr1 (109522216-109521911)
	176-551, gnl\|echTel1\|scaffold_294984 (1261-955)
	176-551, gnl\|hg17\|chr19 (55125799-55126104)
	176-551, gnl\|Hg17\|chr19 (55125803-55126173)
	176-551, gnl\|loxAfr1\|scaffold_30670 (751-458)
	176-551, gnl\|mm7\|chr7 (40989807-40989506)
	176-551, gnl\|Mm7\|chr7 (40989802-40989437)
	176-551, gnl\|panTro1\|chr20 (52489142-52489447)
	176-551, gnl\|rheMac2\|chr19 (56209965-56210291)
	176-551, gnl\|rn3\|chr1 (95364999-95364697)
	176-551, gnl\|xenTro1\|scaffold_1074 (136377-136069)