Non-Coding RNA Search

Ss1.1-rret34_g23.5

Sequence:


               
               CAGACAGCACCCCCAACATCCAGCAGGCCCTGCAGCAGCGGATCCTGCAGCAGCAGCAGA
TGAAGCAGCAGATCGGGTCCCCAGGCCAGCCGAACCCCATGAGCCCCCAGCAGCACATGC
TCTCAGGACAGCCCCAGGCCTCGCACCTCCCCGGCCAGCAGATGGCCACGTCCCTCAGTA
GCCAGGTGCGGTCTCCGGCCCCTGTCCAGTCTCCGCGGCCCCAGTCCCAGCCTCCACATT
CCAGCCCGTCGCCACGGATACAGCCCCAGCCTTCACCACATCACGTGTCGCCCCAGACTG
GTTCCCCCCACCCCGGACTGGCAGTCACCATGGCCAGCTCCATAGATCAGGGACACTTGG
GGAACCCCGAACAGAGTGCAATGCTCCCCCAGCTGAACACCCCCAACAGGAGTGCGTTGT
CCAGTGAGCTGTCCCTGGTCGGCGACACCACGGGAGACACCCTAGAAAAGTTTGTGGAGG
GTTTGTAGCATTGTGAGAGCATCACCTTTGTTTTTGTTTTTGTTTTTTTTTTTCCCTTTC
ATGTTCTTGGACCTTTTGTACTGAAATCCAGGCATCTAGGTTCTTTTTATTCCTAGATGG
AACTGCTACTTCCAAGCCATGGAAGGGTAGATTGCTGTTTAAAGAAACAATACAAAGAAT
ATATTTTTTTGTTAAAAACCAGTTGATTTAAATATCTGGTCTCTCTCTCTCTCTCTCTCT
CTTTCTCTCTCTTTCTGTTTTTGTTTTTTCGTTTTTGTTTTTTGTTTTGGGGGGAGGGGG
GTTTTGTTTGGATTCTTTTTGTCGTCATTGCTGGTGACTCATGCCTTTTTTTAACGGGAA
AAACAAGTTCATTATATTCATATTTTTTATTTGTATTTTCAAGACTTTAAACATTTATGT
TTAAAAGTGAGAAAAATAATATTCAGAAACTGATTCCTGAAATAATGCAAGCTTATAATG
TATCCCGATAACTTTCTGATGTTGCGGGAAGATTTTTTCTATAGTGAACTCTGTGGGCGT
CCTCCAAGTATTACCCCTGGACAGCAGCGATTGGCTCCTGCGTGCACACACATACACACC
CACACACGTCTATCTATACATACTGGCTGAAGCCAAACTCTTGTCTTGCAGATGTAGAAA
TTGTTGCTTTGTTTCTCTGATAAAACTGGTTTTAGGCAAAAAATAGGGACGATCACTCTC
TTAGACCCTGCTCATGTTCATAGAGAAGACGCGTTCTTTTCTTCCTTCTACGTGAAACTT
GAAATGAGGAAAAGCAATTCTAGTGTAAATCATGCAAGCGCTATAATTACTATAAATAAG
AAAATTGAAGAAGATTCAATCACTGTATAGAACGGTAAAGTACCAACTCATTTCTTATAT
CATATTGTTAAATAAACTGTGTGCAACAGACAAGAAGGGTGGTCCTTGAATTCGTGTACA
TGGTATTAACACTTCGTGTTCGGGGTCTTTTGTTATGAAGATGCTGTTTTCAACATTGTA
TTTGGACTATGCATGTGTTTTTTTTTCCCCATTGTATATAAAGTACCGCTTAAAATTGAT
ATAAATTACTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGGGGGGGGGGGCC
GTTTAAAAATTTCCCGGGGGGGGGCCAAATTTACCCCCCCCCCTTTTTTTTGAAAAAGGG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CAGACAGCACCCCCAACATCCAGCAGGCCCTGCAGCAGCGGATCCTGCAGCAGCAGCAGA
TGAAGCAGCAGATCGGGTCCCCAGGCCAGCCGAACCCCATGAGCCCCCAGCAGCACATGC
TCTCAGGACAGCCCCAGGCCTCGCACCTCCCCGGCCAGCAGATGGCCACGTCCCTCAGTA
GCCAGGTGCGGTCTCCGGCCCCTGTCCAGTCTCCGCGGCCCCAGTCCCAGCCTCCACATT
CCAGCCCGTCGCCACGGATACAGCCCCAGCCTTCACCACATCACGTGTCGCCCCAGACTG
GTTCCCCCCACCCCGGACTGGCAGTCACCATGGCCAGCTCCATAGATCAGGGACACTTGG
GGAACCCCGAACAGAGTGCAATGCTCCCCCAGCTGAACACCCCCAACAGGAGTGCGTTGT
CCAGTGAGCTGTCCCTGGTCGGCGACACCACGGGAGACACCCTAGAAAAGTTTGTGGAGG
GTTTGTAGCATTGTGAGAGCATCACCTTTGTTTTTGTTTTTGTTTTTTTTTTTCCCTTTC
ATGTTCTTGGACCTTTTGTACTGAAATCCAGGCATCTAGGTTCTTTTTATTCCTAGATGG
AACTGCTACTTCCAAGCCATGGAAGGGTAGATTGCTGTTTAAAGAAACAATACAAAGAAT
ATATTTTTTTGTTAAAAACCAGTTGATTTAAATATCTGGTCTCTCTCTCTCTCTCTCTCT
CTTTCTCTCTCTTTCTGTTTTTGTTTTTTCGTTTTTGTTTTTTGTTTTGGGGGGAGGGGG
GTTTTGTTTGGATTCTTTTTGTCGTCATTGCTGGTGACTCATGCCTTTTTTTAACGGGAA
AAACAAGTTCATTATATTCATATTTTTTATTTGTATTTTCAAGACTTTAAACATTTATGT
TTAAAAGTGAGAAAAATAATATTCAGAAACTGATTCCTGAAATAATGCAAGCTTATAATG
TATCCCGATAACTTTCTGATGTTGCGGGAAGATTTTTTCTATAGTGAACTCTGTGGGCGT
CCTCCAAGTATTACCCCTGGACAGCAGCGATTGGCTCCTGCGTGCACACACATACACACC
CACACACGTCTATCTATACATACTGGCTGAAGCCAAACTCTTGTCTTGCAGATGTAGAAA
TTGTTGCTTTGTTTCTCTGATAAAACTGGTTTTAGGCAAAAAATAGGGACGATCACTCTC
TTAGACCCTGCTCATGTTCATAGAGAAGACGCGTTCTTTTCTTCCTTCTACGTGAAACTT
GAAATGAGGAAAAGCAATTCTAGTGTAAATCATGCAAGCGCTATAATTACTATAAATAAG
AAAATTGAAGAAGATTCAATCACTGTATAGAACGGTAAAGTACCAACTCATTTCTTATAT
CATATTGTTAAATAAACTGTGTGCAACAGACAAGAAGGGTGGTCCTTGAATTCGTGTACA
TGGTATTAACACTTCGTGTTCGGGGTCTTTTGTTATGAAGATGCTGTTTTCAACATTGTA
TTTGGACTATGCATGTGTTTTTTTTTCCCCATTGTATATAAAGTACCGCTTAAAATTGAT
ATAAATTACTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGGGGGGGGGGGCC
GTTTAAAAATTTCCCGGGGGGGGGCCAAATTTACCCCCCCCCCTTTTTTTTGAAAAAGGG

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               gi|61835728|ref|XP_594625.1|

Coded protein: 1 entry(ies)

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Protein identifier


               
               gi|61835728|ref|XP_594625.1|

Predicted RNA structure(s): 4 entry(ies)

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Predicted RNA structure(s): 4 entry(ies)

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               201-320, - strand, RNAz p=0.906436
               

               
               538-653, - strand, RNAz p=0.550352
               

               
               1000-1117, - strand, RNAz p=0.858603
               

               
               1005-1546, - strand, RNAz p=0.871007

Predicted RNA structure(s): 4 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


               
               201-320, - strand, RNAz p=0.906436
               

               
               538-653, - strand, RNAz p=0.550352
               

               
               1000-1117, - strand, RNAz p=0.858603
               

               
               1005-1546, - strand, RNAz p=0.871007

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               1-1573, gnl|bosTau2|chr25 (638930-637377)
               

               
               1-1573, gnl|Hg17|chr16 (3718207-3716661)
               

               
               1-1573, gnl|Mm7|chr16 (3756100-3754371)
               


               
               853-1362, gnl|bosTau2|chr13 (7134029-7134544)
               

               
               853-1362, gnl|Hg17|chr16 (3717377-3716874)
               

               
               853-1362, gnl|Mm7|chr16 (3755099-3754592)

Aligned organism(s): 6 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


               
               1-1573, gnl|bosTau2|chr25 (638930-637377)
               

               
               1-1573, gnl|Hg17|chr16 (3718207-3716661)
               

               
               1-1573, gnl|Mm7|chr16 (3756100-3754371)
               


               
               853-1362, gnl|bosTau2|chr13 (7134029-7134544)
               

               
               853-1362, gnl|Hg17|chr16 (3717377-3716874)
               

               
               853-1362, gnl|Mm7|chr16 (3755099-3754592)

Expressed library(ies): 33 entry(ies)

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Expressed library(ies): 33 entry(ies)

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               thg (0.633955)
               

               
               sag (0.548145)
               

               
               fco (0.471624)
               

               
               ova (0.387397)
               

               
               ret (0.3862)
               

               
               sug (0.381874)
               

               
               tra (0.369276)
               

               
               gul (0.355177)
               

               
               sme (0.305437)
               

               
               ski (0.29347)
               

               
               liv (0.292569)
               

               
               lin (0.291206)
               

               
               lyg (0.266205)
               

               
               cbe (0.239234)
               

               
               mgp (0.230681)
               

               
               eje (0.197668)
               

               
               nep (0.183925)
               

               
               sin (0.174948)
               

               
               eye (0.170503)
               

               
               mga (0.160205)
               

               
               isp (0.150376)
               

               
               fat (0.147427)
               

               
               hyp (0.142837)
               

               
               csk (0.140746)
               

               
               ste (0.135208)
               

               
               kid (0.129735)
               

               
               ese (0.126502)
               

               
               bla (0.124347)
               

               
               eru (0.120048)
               

               
               pgl (0.118483)
               

               
               ecc (0.115035)
               

               
               cty (0.10408)
               

               
               ldo (0.0970026)

Expressed library(ies): 33 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


               
               thg (0.633955)
               

               
               sag (0.548145)
               

               
               fco (0.471624)
               

               
               ova (0.387397)
               

               
               ret (0.3862)
               

               
               sug (0.381874)
               

               
               tra (0.369276)
               

               
               gul (0.355177)
               

               
               sme (0.305437)
               

               
               ski (0.29347)
               

               
               liv (0.292569)
               

               
               lin (0.291206)
               

               
               lyg (0.266205)
               

               
               cbe (0.239234)
               

               
               mgp (0.230681)
               

               
               eje (0.197668)
               

               
               nep (0.183925)
               

               
               sin (0.174948)
               

               
               eye (0.170503)
               

               
               mga (0.160205)
               

               
               isp (0.150376)
               

               
               fat (0.147427)
               

               
               hyp (0.142837)
               

               
               csk (0.140746)
               

               
               ste (0.135208)
               

               
               kid (0.129735)
               

               
               ese (0.126502)
               

               
               bla (0.124347)
               

               
               eru (0.120048)
               

               
               pgl (0.118483)
               

               
               ecc (0.115035)
               

               
               cty (0.10408)
               

               
               ldo (0.0970026)

	201-320, - strand, RNAz p=0.906436
	538-653, - strand, RNAz p=0.550352
	1000-1117, - strand, RNAz p=0.858603
	1005-1546, - strand, RNAz p=0.871007

	1-1573, gnl\|bosTau2\|chr25 (638930-637377)
	1-1573, gnl\|Hg17\|chr16 (3718207-3716661)
	1-1573, gnl\|Mm7\|chr16 (3756100-3754371)

	853-1362, gnl\|bosTau2\|chr13 (7134029-7134544)
	853-1362, gnl\|Hg17\|chr16 (3717377-3716874)
	853-1362, gnl\|Mm7\|chr16 (3755099-3754592)

	thg (0.633955)
	sag (0.548145)
	fco (0.471624)
	ova (0.387397)
	ret (0.3862)
	sug (0.381874)
	tra (0.369276)
	gul (0.355177)
	sme (0.305437)
	ski (0.29347)
	liv (0.292569)
	lin (0.291206)
	lyg (0.266205)
	cbe (0.239234)
	mgp (0.230681)
	eje (0.197668)
	nep (0.183925)
	sin (0.174948)
	eye (0.170503)
	mga (0.160205)
	isp (0.150376)
	fat (0.147427)
	hyp (0.142837)
	csk (0.140746)
	ste (0.135208)
	kid (0.129735)
	ese (0.126502)
	bla (0.124347)
	eru (0.120048)
	pgl (0.118483)
	ecc (0.115035)
	cty (0.10408)
	ldo (0.0970026)