Non-Coding RNA Search

Ss1.1-rsug01_a10.5

Sequence:


               
               CATGCCCCAGAGACTCCCTTTTCCCTTGCCACCCCACCCGGCCATGGAGTTTTTTGCCCT
GCTCCAAGCTTTGAAGCAGATCCCCCCTTTAAACTTAGAAACCAAAGACTAAACTATTTA
GGGGGTACTGCTGTTGTGCTTTCCTTCCACCCTACTTCCCCCCAAAAAAACCCCATAAAA
ACAGTGTCTGTGAGTACAGCAAGACTGTTCCAGTGTGTATGCCAGGTTTATCAGTGTCAG
GAAGAAAAGATTCAGGAGTGTGTGTGTGTGCGTGTGCATATGCACACACTCGTGTGCACA
TGCATCATGTGTTGGTATGGGACATTAGAGCTCTTTTTGGCATCGGGAGGATGTGAAGGA
GTACCTGACATTCTGACATCAGGTGATTTGGGGGGATGGTAGTACGTCTCTGGGCTTTTC
CCCACCCAGAGACTATCCCCCTCTGCTACAAATCAGCTGGAGTTTCAAAAGCTTCAAAGT
CTTGGTCTGTGAGTCAGTCTTTACTTTGGGAGCCAGGTCTGTGGCTTTGAGAAAAAGGTA
CTTTCAAAAGAGGGCTTTCCAGAGTGCGGTTCTCAGCCAGCTCTTCTGACCCCACCCTTC
TCCCTTTCATTGTCACCGTGACTCACCATATGGGGAGAGGGCAGCCAGACTGAACTTTCT
GCAAAGTGGTGAAGTAGCAGACACTGGCATAGCATGGTAGCGGTTTGGGGAGATTTCCAC
AGGACTGCTCCCCACCCCTGCCTCGGATGAATAAAGAGAATGTAGTTCCCTACTCAGGCT
TTCATAGCGATTAGCTTCCTAAGGAACTGAAAAAGGCCCCCTGGTACAAGCCCAACTGCC
AGGGAAGGAGGGAGAAGCCACCCTGGGCCTCAGGCATCTGTTTTTAGTCTTACTGAGAAA
ACGGTCTTGCTGTCCAGGGAATCAAAGCAGGGTTAGAGAGATGCAAGCGCCTAAGTTCCC
AGAACCCCAAAGTGCATAAAAAGCTGAGTAATAAATTACTGTTCCCACAAGCGAAGCTAG
ACTCGGTTGTCAGCTCTACCCTCAAGCTCCTTTTAACCAGGCTTAGCTTCCTTAAGGACT
AACCAACCCTTGGCATAGCAAGATCCTTTCTGCAGGCTAATTCCCCTTACCCGACGGCAT
ATGGAGTGTCCTTATTGCTAAAAAGGATTCTGTCTCCTTCAAAGAAATTTTATTTTTGGT
CCAGAGTACTTTTCTGACTTGTCCAGCTAGCCCTGCACCAGCTTTTTGAAATGCACTATG
CTTGATCGCTGACCGTGTTTTAACTTTTTATTTTCCTGTTTTTATTTTGGTATAAAGTTG
TTGCCTTTATTTGTAAAACTGTTATAAATATATATATATTATATAAATATATTGAAAAGG
AAAGTGTTTCAGATGTTTATTTGTATAATTACTTGATCTACAAAAGTGAGGGAAAATGAA
TGTATTCCTGTTTTTGAAGAGAAGAATAATTTTTTTTTTCTTGAGGGAGAGGTACAGTGT
TTATATTTTGAAGCCTTCCTGAAGGTGTGAAATTGTAAATATTTTTATCTATGAGTCAAT
GTTAAGGAGTTGTTTTAAAATACTTAATAAAATAATCCTTTTCCTGTG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CATGCCCCAGAGACTCCCTTTTCCCTTGCCACCCCACCCGGCCATGGAGTTTTTTGCCCT
GCTCCAAGCTTTGAAGCAGATCCCCCCTTTAAACTTAGAAACCAAAGACTAAACTATTTA
GGGGGTACTGCTGTTGTGCTTTCCTTCCACCCTACTTCCCCCCAAAAAAACCCCATAAAA
ACAGTGTCTGTGAGTACAGCAAGACTGTTCCAGTGTGTATGCCAGGTTTATCAGTGTCAG
GAAGAAAAGATTCAGGAGTGTGTGTGTGTGCGTGTGCATATGCACACACTCGTGTGCACA
TGCATCATGTGTTGGTATGGGACATTAGAGCTCTTTTTGGCATCGGGAGGATGTGAAGGA
GTACCTGACATTCTGACATCAGGTGATTTGGGGGGATGGTAGTACGTCTCTGGGCTTTTC
CCCACCCAGAGACTATCCCCCTCTGCTACAAATCAGCTGGAGTTTCAAAAGCTTCAAAGT
CTTGGTCTGTGAGTCAGTCTTTACTTTGGGAGCCAGGTCTGTGGCTTTGAGAAAAAGGTA
CTTTCAAAAGAGGGCTTTCCAGAGTGCGGTTCTCAGCCAGCTCTTCTGACCCCACCCTTC
TCCCTTTCATTGTCACCGTGACTCACCATATGGGGAGAGGGCAGCCAGACTGAACTTTCT
GCAAAGTGGTGAAGTAGCAGACACTGGCATAGCATGGTAGCGGTTTGGGGAGATTTCCAC
AGGACTGCTCCCCACCCCTGCCTCGGATGAATAAAGAGAATGTAGTTCCCTACTCAGGCT
TTCATAGCGATTAGCTTCCTAAGGAACTGAAAAAGGCCCCCTGGTACAAGCCCAACTGCC
AGGGAAGGAGGGAGAAGCCACCCTGGGCCTCAGGCATCTGTTTTTAGTCTTACTGAGAAA
ACGGTCTTGCTGTCCAGGGAATCAAAGCAGGGTTAGAGAGATGCAAGCGCCTAAGTTCCC
AGAACCCCAAAGTGCATAAAAAGCTGAGTAATAAATTACTGTTCCCACAAGCGAAGCTAG
ACTCGGTTGTCAGCTCTACCCTCAAGCTCCTTTTAACCAGGCTTAGCTTCCTTAAGGACT
AACCAACCCTTGGCATAGCAAGATCCTTTCTGCAGGCTAATTCCCCTTACCCGACGGCAT
ATGGAGTGTCCTTATTGCTAAAAAGGATTCTGTCTCCTTCAAAGAAATTTTATTTTTGGT
CCAGAGTACTTTTCTGACTTGTCCAGCTAGCCCTGCACCAGCTTTTTGAAATGCACTATG
CTTGATCGCTGACCGTGTTTTAACTTTTTATTTTCCTGTTTTTATTTTGGTATAAAGTTG
TTGCCTTTATTTGTAAAACTGTTATAAATATATATATATTATATAAATATATTGAAAAGG
AAAGTGTTTCAGATGTTTATTTGTATAATTACTTGATCTACAAAAGTGAGGGAAAATGAA
TGTATTCCTGTTTTTGAAGAGAAGAATAATTTTTTTTTTCTTGAGGGAGAGGTACAGTGT
TTATATTTTGAAGCCTTCCTGAAGGTGTGAAATTGTAAATATTTTTATCTATGAGTCAAT
GTTAAGGAGTTGTTTTAAAATACTTAATAAAATAATCCTTTTCCTGTG

Predicted RNA structure(s): 3 entry(ies)

More info

Predicted RNA structure(s): 3 entry(ies)

Help | Less info


               
               239-467, - strand, RNAz p=0.999685
               

               
               811-923, - strand, RNAz p=0.527748
               

               
               1437-1556, - strand, RNAz p=0.961743

Predicted RNA structure(s): 3 entry(ies)

Help | Less info

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


               
               239-467, - strand, RNAz p=0.999685
               

               
               811-923, - strand, RNAz p=0.527748
               

               
               1437-1556, - strand, RNAz p=0.961743

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1608, gnl|bosTau2|chr22 (17176913-17178478)
               

               
               1-1608, gnl|Hg17|chr3 (5000266-5001857)
               

               
               1-1608, gnl|Mm7|chr6 (108759262-108760808)

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


               
               1-1608, gnl|bosTau2|chr22 (17176913-17178478)
               

               
               1-1608, gnl|Hg17|chr3 (5000266-5001857)
               

               
               1-1608, gnl|Mm7|chr6 (108759262-108760808)

Expressed library(ies): 33 entry(ies)

More info

Expressed library(ies): 33 entry(ies)

Help | Less info


               
               sug (0.636456)
               

               
               pla (0.534688)
               

               
               ste (0.405625)
               

               
               fcc (0.39557)
               

               
               cut (0.339847)
               

               
               mga (0.32041)
               

               
               ski (0.29347)
               

               
               ssp (0.271039)
               

               
               kid (0.259471)
               

               
               mgp (0.230681)
               

               
               spc (0.226732)
               

               
               hea (0.204499)
               

               
               nlu (0.191681)
               

               
               sag (0.182715)
               

               
               fty (0.17584)
               

               
               sin (0.174948)
               

               
               rec (0.17307)
               

               
               cki (0.165235)
               

               
               cje (0.165235)
               

               
               fco (0.157208)
               

               
               lun (0.150489)
               

               
               bfe (0.149858)
               

               
               csk (0.140746)
               

               
               cst (0.140036)
               

               
               nca (0.136874)
               

               
               che (0.136314)
               

               
               ute (0.132784)
               

               
               ret (0.128733)
               

               
               bla (0.124347)
               

               
               eru (0.120048)
               

               
               med (0.116252)
               

               
               jca (0.11396)
               

               
               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


               
               sug (0.636456)
               

               
               pla (0.534688)
               

               
               ste (0.405625)
               

               
               fcc (0.39557)
               

               
               cut (0.339847)
               

               
               mga (0.32041)
               

               
               ski (0.29347)
               

               
               ssp (0.271039)
               

               
               kid (0.259471)
               

               
               mgp (0.230681)
               

               
               spc (0.226732)
               

               
               hea (0.204499)
               

               
               nlu (0.191681)
               

               
               sag (0.182715)
               

               
               fty (0.17584)
               

               
               sin (0.174948)
               

               
               rec (0.17307)
               

               
               cki (0.165235)
               

               
               cje (0.165235)
               

               
               fco (0.157208)
               

               
               lun (0.150489)
               

               
               bfe (0.149858)
               

               
               csk (0.140746)
               

               
               cst (0.140036)
               

               
               nca (0.136874)
               

               
               che (0.136314)
               

               
               ute (0.132784)
               

               
               ret (0.128733)
               

               
               bla (0.124347)
               

               
               eru (0.120048)
               

               
               med (0.116252)
               

               
               jca (0.11396)
               

               
               ldo (0.0970026)

	239-467, - strand, RNAz p=0.999685
	811-923, - strand, RNAz p=0.527748
	1437-1556, - strand, RNAz p=0.961743

	1-1608, gnl\|bosTau2\|chr22 (17176913-17178478)
	1-1608, gnl\|Hg17\|chr3 (5000266-5001857)
	1-1608, gnl\|Mm7\|chr6 (108759262-108760808)

	sug (0.636456)
	pla (0.534688)
	ste (0.405625)
	fcc (0.39557)
	cut (0.339847)
	mga (0.32041)
	ski (0.29347)
	ssp (0.271039)
	kid (0.259471)
	mgp (0.230681)
	spc (0.226732)
	hea (0.204499)
	nlu (0.191681)
	sag (0.182715)
	fty (0.17584)
	sin (0.174948)
	rec (0.17307)
	cki (0.165235)
	cje (0.165235)
	fco (0.157208)
	lun (0.150489)
	bfe (0.149858)
	csk (0.140746)
	cst (0.140036)
	nca (0.136874)
	che (0.136314)
	ute (0.132784)
	ret (0.128733)
	bla (0.124347)
	eru (0.120048)
	med (0.116252)
	jca (0.11396)
	ldo (0.0970026)