Non-Coding RNA Search

Ss1.1-rret24_k21.5.5

Sequence:


               
               ATGGACTTGAAAAAGATCCAAATCCCTATTCTCTATTAAGAAAAAGTCAGTTATGAAAAT
CTTTATAGTCAACTTTTTATGAACCTTTTAATATCCAGTCAAGTCTCGCTTATTTGGGGC
TCGATCTTGGGACTTACCTGTCCTTTGTGTTCTCTTTGATGCTCCCTGTCCTTGAAGGTA
TTCACTGCCCTAAAGGAGACACACAGAGGCAGCAGGAGAAAGGCCAGAAGAAATTAACCC
TTGCTGCTCCTTGTCAGTGTCTCTGAAAAAGGGACCGTGGTGGCAGGAGCAGGACCCCAC
TTGGTTGGGCATCCTTGGGCTAGTTCCTTCTCCTTAAATTAGACTCACAGTGGCTTCCAA
TTTCTTGTCACACCAGATTAAAGTTGCTGACAATTTTCGAGCATCATTATATTTGCCCCC
CTCCCCATAATCTGTTTTTTCACTCACTGATCCCAGTTTTTGCCATTGACTCTTCCACTC
AGTTTTATTCATGGTATATTTCTCAGAGTGACACTGTTTGTCATTTTGGGAACAAACCTA
TCCAACCTTTTCCACAAAATCAAATTTCTCTCTCCTTCAAAAACATGACCCCCCCCCCCC
AACGCCCTTCCTTGACCCCTGGCTCTCCTTGACTGTCTGTTCCTGTCTGTCCAGCTGCCA
CTTTCATCTCTTACTTACCTTTCCTAGTACTTCACGTATCTCTGCTTAGCTCTCTTGGGC
TTTTGTCTTGCTTCTCTCATTCAATTTAAAAATTCCTCCATATATAGCAAGAGCTTTTTT
TTTTTTCTTCCTTTCTCTTCTTGCAGTGTTTCACATACATTTGATGATCACTGCATTAAG
TTTGATGATTGACAATAGGCTGTATTTGTATTTCTCACTATTTTTAATAGGATGAGCTAG
AGAGTTTTCTTTTTAGACAAATTTCACATGCTCTGAAAACCTTAAAAGGTGATTGATGAC
TTTTTCACCTAGAAACCCCAGTTTTGATCTATTAAAATTTCTGAGAATGTCAGAATCAAA
ATACTGGGGCTATCCCGTAGCTGGGAGTATTCCTCTTTTCAGGATGCTGTGGTCAGTGTA
GTTAGTGACCAGCCAAATTGTGGTTTGAGTTATAATAAAGTTCAAAAAGTGGTAAATTTA
TTCCTCCTTTTCATTTATAAGAATTAAGCTCTATATCACCTAGGTTTCTCTTGTCCTAAC
GTGGGTATTCCAAATAGACATCTGTGGTGTTTGTATGTACCTCTTTATTTACCTGTTGTT
GGAAACTAGAGAAATGACTTTTTGGCAACCCTTTATCTTTTTACTGTGTTTTCATTTGAT
GGAGTTTGTTTAGAAATGTTGTTTTTCACATGTGTCAGATTTTCAAAACCACTAACCGCC
ATCACCCACTCGTGTTCTTTGTTAAGTCATTTTCCATGGCTAAAATCCAGGTAACTTTTA
AACGATGAGCAGTGAACAGGAAGTTTTCCTTCCTTTGGCTTTTGACAGCTCTTACTTAAC
ATTTATGGCCAGCATGCCCATAAATTTAGCCTTTTGAAAAGAAAGAGAGCATTTGTAATA
AGCTTCTCTGTAAGGCAACATCAGTGGAATCTTTAAAGTGTTGTTATCAGAGTTGGTGAA
AGAGGGAAGCATTTTTGATTTTATTAAACAGAGCATTATTTACAAAAAGCCATTATTGAG
AATTAGATCCCACACCATATAAATATCCACGAACCATTCTAAATAAGGAAAACTCCAGTG
TTGCTATGTGCAAGATCCTCTCTTGGGGGCTTTTTTCCATAGCAATTAAAGGTGTGCTAT
TTGTCAGTAGCCATTTTTTGCAGTGATTTAAAGACCAAAGTTGTTTTACAGCTGTGTTAC
CGTTAGAGGTTTTTTTTATATGTATTAAATCAATTTATCACTGTTTGAAGCTTTGAATAT
CTGCAAACTTTGCCAAGATACTTTTTTATTTAAAAAACATAACTTTGTAAATATTACCCT
GTAATATTATATATACTTAATAAAACATTTTAAGCTAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ATGGACTTGAAAAAGATCCAAATCCCTATTCTCTATTAAGAAAAAGTCAGTTATGAAAAT
CTTTATAGTCAACTTTTTATGAACCTTTTAATATCCAGTCAAGTCTCGCTTATTTGGGGC
TCGATCTTGGGACTTACCTGTCCTTTGTGTTCTCTTTGATGCTCCCTGTCCTTGAAGGTA
TTCACTGCCCTAAAGGAGACACACAGAGGCAGCAGGAGAAAGGCCAGAAGAAATTAACCC
TTGCTGCTCCTTGTCAGTGTCTCTGAAAAAGGGACCGTGGTGGCAGGAGCAGGACCCCAC
TTGGTTGGGCATCCTTGGGCTAGTTCCTTCTCCTTAAATTAGACTCACAGTGGCTTCCAA
TTTCTTGTCACACCAGATTAAAGTTGCTGACAATTTTCGAGCATCATTATATTTGCCCCC
CTCCCCATAATCTGTTTTTTCACTCACTGATCCCAGTTTTTGCCATTGACTCTTCCACTC
AGTTTTATTCATGGTATATTTCTCAGAGTGACACTGTTTGTCATTTTGGGAACAAACCTA
TCCAACCTTTTCCACAAAATCAAATTTCTCTCTCCTTCAAAAACATGACCCCCCCCCCCC
AACGCCCTTCCTTGACCCCTGGCTCTCCTTGACTGTCTGTTCCTGTCTGTCCAGCTGCCA
CTTTCATCTCTTACTTACCTTTCCTAGTACTTCACGTATCTCTGCTTAGCTCTCTTGGGC
TTTTGTCTTGCTTCTCTCATTCAATTTAAAAATTCCTCCATATATAGCAAGAGCTTTTTT
TTTTTTCTTCCTTTCTCTTCTTGCAGTGTTTCACATACATTTGATGATCACTGCATTAAG
TTTGATGATTGACAATAGGCTGTATTTGTATTTCTCACTATTTTTAATAGGATGAGCTAG
AGAGTTTTCTTTTTAGACAAATTTCACATGCTCTGAAAACCTTAAAAGGTGATTGATGAC
TTTTTCACCTAGAAACCCCAGTTTTGATCTATTAAAATTTCTGAGAATGTCAGAATCAAA
ATACTGGGGCTATCCCGTAGCTGGGAGTATTCCTCTTTTCAGGATGCTGTGGTCAGTGTA
GTTAGTGACCAGCCAAATTGTGGTTTGAGTTATAATAAAGTTCAAAAAGTGGTAAATTTA
TTCCTCCTTTTCATTTATAAGAATTAAGCTCTATATCACCTAGGTTTCTCTTGTCCTAAC
GTGGGTATTCCAAATAGACATCTGTGGTGTTTGTATGTACCTCTTTATTTACCTGTTGTT
GGAAACTAGAGAAATGACTTTTTGGCAACCCTTTATCTTTTTACTGTGTTTTCATTTGAT
GGAGTTTGTTTAGAAATGTTGTTTTTCACATGTGTCAGATTTTCAAAACCACTAACCGCC
ATCACCCACTCGTGTTCTTTGTTAAGTCATTTTCCATGGCTAAAATCCAGGTAACTTTTA
AACGATGAGCAGTGAACAGGAAGTTTTCCTTCCTTTGGCTTTTGACAGCTCTTACTTAAC
ATTTATGGCCAGCATGCCCATAAATTTAGCCTTTTGAAAAGAAAGAGAGCATTTGTAATA
AGCTTCTCTGTAAGGCAACATCAGTGGAATCTTTAAAGTGTTGTTATCAGAGTTGGTGAA
AGAGGGAAGCATTTTTGATTTTATTAAACAGAGCATTATTTACAAAAAGCCATTATTGAG
AATTAGATCCCACACCATATAAATATCCACGAACCATTCTAAATAAGGAAAACTCCAGTG
TTGCTATGTGCAAGATCCTCTCTTGGGGGCTTTTTTCCATAGCAATTAAAGGTGTGCTAT
TTGTCAGTAGCCATTTTTTGCAGTGATTTAAAGACCAAAGTTGTTTTACAGCTGTGTTAC
CGTTAGAGGTTTTTTTTATATGTATTAAATCAATTTATCACTGTTTGAAGCTTTGAATAT
CTGCAAACTTTGCCAAGATACTTTTTTATTTAAAAAACATAACTTTGTAAATATTACCCT
GTAATATTATATATACTTAATAAAACATTTTAAGCTAAAAAAAAAAAA

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

More info

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

Help | Less info


               
               1371-1478, - strand, RNAz p=0.587896
               

               
               1713-1904, - strand, RNAz p=0.884134

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


               
               1371-1478, - strand, RNAz p=0.587896
               

               
               1713-1904, - strand, RNAz p=0.884134

Aligned organism(s): 6 entry(ies)

More info

Aligned organism(s): 6 entry(ies)

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               1-536, gnl|bosTau2|chr1 (29071269-29071782)
               

               
               1-536, gnl|Hg17|chr3 (109246864-109246338)
               

               
               1-536, gnl|Mm7|chr16 (49673487-49674097)
               


               
               598-2017, gnl|bosTau2|chr1 (29071807-29073217)
               

               
               598-2017, gnl|Hg17|chr3 (109246321-109244836)
               

               
               598-2017, gnl|Mm7|chr16 (49674114-49675702)

Aligned organism(s): 6 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


               
               1-536, gnl|bosTau2|chr1 (29071269-29071782)
               

               
               1-536, gnl|Hg17|chr3 (109246864-109246338)
               

               
               1-536, gnl|Mm7|chr16 (49673487-49674097)
               


               
               598-2017, gnl|bosTau2|chr1 (29071807-29073217)
               

               
               598-2017, gnl|Hg17|chr3 (109246321-109244836)
               

               
               598-2017, gnl|Mm7|chr16 (49674114-49675702)

Expressed library(ies): 39 entry(ies)

More info

Expressed library(ies): 39 entry(ies)

Help | Less info


               
               fat (0.737137)
               

               
               liv (0.731422)
               

               
               spl (0.715922)
               

               
               fco (0.628832)
               

               
               pla (0.534688)
               

               
               sin (0.524843)
               

               
               pro (0.512033)
               

               
               mgp (0.461361)
               

               
               cbl (0.45919)
               

               
               lin (0.436808)
               

               
               amn (0.417711)
               

               
               ste (0.405625)
               

               
               aor (0.390549)
               

               
               kid (0.389206)
               

               
               ret (0.3862)
               

               
               sug (0.381874)
               

               
               thg (0.380373)
               

               
               sag (0.36543)
               

               
               gul (0.355177)
               

               
               sme (0.305437)
               

               
               fce (0.271592)
               

               
               bla (0.248694)
               

               
               clu (0.239292)
               

               
               ebs (0.236602)
               

               
               jca (0.22792)
               

               
               hea (0.204499)
               

               
               fcc (0.197785)
               

               
               ldo (0.194005)
               

               
               nlu (0.191681)
               

               
               mgm (0.180343)
               

               
               csp (0.161186)
               

               
               mga (0.160205)
               

               
               lun (0.150489)
               

               
               bfe (0.149858)
               

               
               cov (0.132153)
               

               
               ova (0.129132)
               

               
               spc (0.113366)
               

               
               cty (0.10408)
               

               
               nbm (0.0993246)

Expressed library(ies): 39 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


               
               fat (0.737137)
               

               
               liv (0.731422)
               

               
               spl (0.715922)
               

               
               fco (0.628832)
               

               
               pla (0.534688)
               

               
               sin (0.524843)
               

               
               pro (0.512033)
               

               
               mgp (0.461361)
               

               
               cbl (0.45919)
               

               
               lin (0.436808)
               

               
               amn (0.417711)
               

               
               ste (0.405625)
               

               
               aor (0.390549)
               

               
               kid (0.389206)
               

               
               ret (0.3862)
               

               
               sug (0.381874)
               

               
               thg (0.380373)
               

               
               sag (0.36543)
               

               
               gul (0.355177)
               

               
               sme (0.305437)
               

               
               fce (0.271592)
               

               
               bla (0.248694)
               

               
               clu (0.239292)
               

               
               ebs (0.236602)
               

               
               jca (0.22792)
               

               
               hea (0.204499)
               

               
               fcc (0.197785)
               

               
               ldo (0.194005)
               

               
               nlu (0.191681)
               

               
               mgm (0.180343)
               

               
               csp (0.161186)
               

               
               mga (0.160205)
               

               
               lun (0.150489)
               

               
               bfe (0.149858)
               

               
               cov (0.132153)
               

               
               ova (0.129132)
               

               
               spc (0.113366)
               

               
               cty (0.10408)
               

               
               nbm (0.0993246)

	1371-1478, - strand, RNAz p=0.587896
	1713-1904, - strand, RNAz p=0.884134

	1-536, gnl\|bosTau2\|chr1 (29071269-29071782)
	1-536, gnl\|Hg17\|chr3 (109246864-109246338)
	1-536, gnl\|Mm7\|chr16 (49673487-49674097)

	598-2017, gnl\|bosTau2\|chr1 (29071807-29073217)
	598-2017, gnl\|Hg17\|chr3 (109246321-109244836)
	598-2017, gnl\|Mm7\|chr16 (49674114-49675702)

	fat (0.737137)
	liv (0.731422)
	spl (0.715922)
	fco (0.628832)
	pla (0.534688)
	sin (0.524843)
	pro (0.512033)
	mgp (0.461361)
	cbl (0.45919)
	lin (0.436808)
	amn (0.417711)
	ste (0.405625)
	aor (0.390549)
	kid (0.389206)
	ret (0.3862)
	sug (0.381874)
	thg (0.380373)
	sag (0.36543)
	gul (0.355177)
	sme (0.305437)
	fce (0.271592)
	bla (0.248694)
	clu (0.239292)
	ebs (0.236602)
	jca (0.22792)
	hea (0.204499)
	fcc (0.197785)
	ldo (0.194005)
	nlu (0.191681)
	mgm (0.180343)
	csp (0.161186)
	mga (0.160205)
	lun (0.150489)
	bfe (0.149858)
	cov (0.132153)
	ova (0.129132)
	spc (0.113366)
	cty (0.10408)
	nbm (0.0993246)