Non-Coding RNA Search

Ss1.1-rcbe03_j13.5

Sequence:


               
               TCCTTCCCCTGAAAATAGTTCTGTCACAGAATACCGAATGGAAGTTCCATCTTCGTTTTC
AGAAGACACGTCAAATGTCAGGTCACGGCATGTGGAAGAACAGTCCAACAGTGGTAGATT
TGAAGATTGTAAAGAATTTAAAGACCTCCACTGTTCGAAGGATTCTCACCTCGCTGGGGA
AGAATCTGAGTTCCCTTCTACTTCTCTCTCTGCAGTTCTGTCTGACTTAGCTGACTTGAG
AAGCTGTGACAGTCAAGCTTTGCCCTCCCAGGACCCTGAGGCTGCTTTATCACTCAGTTG
TGGCCATTCCAGAGGACTCTTTAGTCACATGCAGCAGCACGATATTTTAGATACCCTATG
TAGGACCATTGAATCTACAATCCATGTGGTCACAAGGATATCTGGCAAAGGAAACCAAGC
TGCTTCTTGACATTAGATGTAGCATGTCTACTTTTAAGGTCCCCCCTCCCCCCAATGCTG
TTTGTATAAGTTTTGCTTATTTCTGTTTTTGTGCTTCAGTTCGTCCAGTGCTCTCTGCTT
GAATGGCAAGATAGATTCATAGGCTTAATTCTTGGTCAGGCAGAACTTCAGGTGAAAAAA
TTTGCATCTTCAATATACTTTCTAAAGGGCAATCAGATAATGGATATGTTTTATGTAATT
AAGAGTTCACTGTAGTGGCTTTCATTTAATATGGCTGTCTGGGAGGAACAGGGTTCCCTG
GCCCTGTACAATGTAATTTAAACTTACAGCATTTTTACTGTGTATAATATGGTGTCCTCT
GTGCCAGTTTTGTACCTTATAATAGAGGCAGATTGCCTCCAATCGCTGTGGTTCTTATTA
TCAAAATTAAGTTTACTTGTATATGGAACAACCACAAGAAATTTGATTCTGTAAAGAATC
CTCTTTAGCTGTGGCCTGGCAGTATATAAATGGTGCTTTATTTAACAGAATACCTGTGGA
GGAAATAAAGCACACTTGATGTAAAAATAATTGTTTTATTTTTATTGACATGACTGATTG
CTATTCTGTGCACTTAATTAAACTGATTGTGATGAC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TCCTTCCCCTGAAAATAGTTCTGTCACAGAATACCGAATGGAAGTTCCATCTTCGTTTTC
AGAAGACACGTCAAATGTCAGGTCACGGCATGTGGAAGAACAGTCCAACAGTGGTAGATT
TGAAGATTGTAAAGAATTTAAAGACCTCCACTGTTCGAAGGATTCTCACCTCGCTGGGGA
AGAATCTGAGTTCCCTTCTACTTCTCTCTCTGCAGTTCTGTCTGACTTAGCTGACTTGAG
AAGCTGTGACAGTCAAGCTTTGCCCTCCCAGGACCCTGAGGCTGCTTTATCACTCAGTTG
TGGCCATTCCAGAGGACTCTTTAGTCACATGCAGCAGCACGATATTTTAGATACCCTATG
TAGGACCATTGAATCTACAATCCATGTGGTCACAAGGATATCTGGCAAAGGAAACCAAGC
TGCTTCTTGACATTAGATGTAGCATGTCTACTTTTAAGGTCCCCCCTCCCCCCAATGCTG
TTTGTATAAGTTTTGCTTATTTCTGTTTTTGTGCTTCAGTTCGTCCAGTGCTCTCTGCTT
GAATGGCAAGATAGATTCATAGGCTTAATTCTTGGTCAGGCAGAACTTCAGGTGAAAAAA
TTTGCATCTTCAATATACTTTCTAAAGGGCAATCAGATAATGGATATGTTTTATGTAATT
AAGAGTTCACTGTAGTGGCTTTCATTTAATATGGCTGTCTGGGAGGAACAGGGTTCCCTG
GCCCTGTACAATGTAATTTAAACTTACAGCATTTTTACTGTGTATAATATGGTGTCCTCT
GTGCCAGTTTTGTACCTTATAATAGAGGCAGATTGCCTCCAATCGCTGTGGTTCTTATTA
TCAAAATTAAGTTTACTTGTATATGGAACAACCACAAGAAATTTGATTCTGTAAAGAATC
CTCTTTAGCTGTGGCCTGGCAGTATATAAATGGTGCTTTATTTAACAGAATACCTGTGGA
GGAAATAAAGCACACTTGATGTAAAAATAATTGTTTTATTTTTATTGACATGACTGATTG
CTATTCTGTGCACTTAATTAAACTGATTGTGATGAC

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

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

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               320-439, - strand, RNAz p=0.992356
               

               
               670-1020, + strand, RNAz p=0.995243

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


               
               320-439, - strand, RNAz p=0.992356
               

               
               670-1020, + strand, RNAz p=0.995243

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               670-1020, 4066663 BARC 10BOV Bos taurus cDNA clone 10BOV13_K08 5', mRNA 
(gb|CK942904.1|), blast E-value=0, identity=98.86% 
               

               
               670-1020, 4099217 BARC 10BOV Bos taurus cDNA clone 10BOV5_O16 3', mRNA 
(gb|CK958408.1|), blast E-value=0, identity=98.86% 
               

               
               670-1020, 4105278 BARC 9BOV Bos taurus cDNA clone 9BOV30_L05 3', mRNA 
(gb|CK974448.1|), blast E-value=0, identity=98.29% 
               

               
               670-1020, BovGen_12614 normal cattle brain Bos taurus cDNA clone 
(gb|CO884289.1|), blast E-value=0, identity=98.86% 
               

               
               670-1020, 010125BEMN055072HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY133285.1|), blast E-value=0, identity=98.86% 
               

               
               670-1020, nbc10g05.x1 Rabbit trigeminal nerve. Unnormalized (nbc) Oryctolagus 
(gb|EB374024.1|), blast E-value=0, identity=97.44%

Similar Transcript(s): 6 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


               
               670-1020, 4066663 BARC 10BOV Bos taurus cDNA clone 10BOV13_K08 5', mRNA 
(gb|CK942904.1|), blast E-value=0, identity=98.86% 
               

               
               670-1020, 4099217 BARC 10BOV Bos taurus cDNA clone 10BOV5_O16 3', mRNA 
(gb|CK958408.1|), blast E-value=0, identity=98.86% 
               

               
               670-1020, 4105278 BARC 9BOV Bos taurus cDNA clone 9BOV30_L05 3', mRNA 
(gb|CK974448.1|), blast E-value=0, identity=98.29% 
               

               
               670-1020, BovGen_12614 normal cattle brain Bos taurus cDNA clone 
(gb|CO884289.1|), blast E-value=0, identity=98.86% 
               

               
               670-1020, 010125BEMN055072HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY133285.1|), blast E-value=0, identity=98.86% 
               

               
               670-1020, nbc10g05.x1 Rabbit trigeminal nerve. Unnormalized (nbc) Oryctolagus 
(gb|EB374024.1|), blast E-value=0, identity=97.44%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1056, gnl|bosTau2|chr13 (58252156-58253216)
               

               
               1-1056, gnl|Hg17|chr2 (61327317-61326255)
               

               
               1-1056, gnl|Mm7|chr11 (23440768-23441810)

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


               
               1-1056, gnl|bosTau2|chr13 (58252156-58253216)
               

               
               1-1056, gnl|Hg17|chr2 (61327317-61326255)
               

               
               1-1056, gnl|Mm7|chr11 (23440768-23441810)

Expressed library(ies): 13 entry(ies)

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Expressed library(ies): 13 entry(ies)

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               pro (0.512033)
               

               
               cbe (0.478469)
               

               
               tes (0.415628)
               

               
               tra (0.246184)
               

               
               eru (0.240096)
               

               
               gul (0.177588)
               

               
               bfe (0.149858)
               

               
               fat (0.147427)
               

               
               ret (0.128733)
               

               
               sug (0.127291)
               

               
               thg (0.126791)
               

               
               ecc (0.115035)
               

               
               spc (0.113366)

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


               
               pro (0.512033)
               

               
               cbe (0.478469)
               

               
               tes (0.415628)
               

               
               tra (0.246184)
               

               
               eru (0.240096)
               

               
               gul (0.177588)
               

               
               bfe (0.149858)
               

               
               fat (0.147427)
               

               
               ret (0.128733)
               

               
               sug (0.127291)
               

               
               thg (0.126791)
               

               
               ecc (0.115035)
               

               
               spc (0.113366)

	320-439, - strand, RNAz p=0.992356
	670-1020, + strand, RNAz p=0.995243

	670-1020, 4066663 BARC 10BOV Bos taurus cDNA clone 10BOV13_K08 5', mRNA (gb\|CK942904.1\|), blast E-value=0, identity=98.86%
	670-1020, 4099217 BARC 10BOV Bos taurus cDNA clone 10BOV5_O16 3', mRNA (gb\|CK958408.1\|), blast E-value=0, identity=98.86%
	670-1020, 4105278 BARC 9BOV Bos taurus cDNA clone 9BOV30_L05 3', mRNA (gb\|CK974448.1\|), blast E-value=0, identity=98.29%
	670-1020, BovGen_12614 normal cattle brain Bos taurus cDNA clone (gb\|CO884289.1\|), blast E-value=0, identity=98.86%
	670-1020, 010125BEMN055072HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY133285.1\|), blast E-value=0, identity=98.86%
	670-1020, nbc10g05.x1 Rabbit trigeminal nerve. Unnormalized (nbc) Oryctolagus (gb\|EB374024.1\|), blast E-value=0, identity=97.44%

	1-1056, gnl\|bosTau2\|chr13 (58252156-58253216)
	1-1056, gnl\|Hg17\|chr2 (61327317-61326255)
	1-1056, gnl\|Mm7\|chr11 (23440768-23441810)

	pro (0.512033)
	cbe (0.478469)
	tes (0.415628)
	tra (0.246184)
	eru (0.240096)
	gul (0.177588)
	bfe (0.149858)
	fat (0.147427)
	ret (0.128733)
	sug (0.127291)
	thg (0.126791)
	ecc (0.115035)
	spc (0.113366)