Non-Coding RNA Search

Ss1.1-rpfco0124_k24.5

Sequence:


               
               TGGATTTTAGATAATGATATTAGTGATCTGGGTCTAGAACTGACTTTTTCTGTTGAGACT
GATGTGTTTGGAGCAATGGAAGAGGTGCCTTTGAAACCTGGGGGTGGAAGTATTCTTGTT
ACACAAAATAACAAAGCGGAGTATGTCCAGCTTGTCACTGAACTTCGAATGACCAGAGCC
ATCCAGCCTCAGATCAATGCTTTTTTACAGGGCTTTCATATGTTCATTCCACCTTCCCTC
ATACAGCTTTTTGATGAATATGAATTGGAGCTCCTGCTGTCTGGCATGCCAGAAATTGAT
GTGAGTGACTGGATAAAAAATACAGAATACACAAGTGGCTATGAAAGAGAAGATCCAGTT
ATTCAGTGGTTCTGGGAAGTTGTGGAAGATATTACACCGGAGGAGAGAGTTCTTCTCTTG
CAGTTTGTTACTGGCAGTTCCAGGGTCCCACATGGAGGATTTGCTAATATCATGGGTGGA
AGTGGATTGCAGAACTTTACAATTGCTGCTGTGCCATATACTCCAAATCTTCTACCGACC
TCGAGCACGTGCATCAACATGCTCAAGTTACCTGAATATCCAAGTAAGGAAATACTCAAG
GACAGGCTTCTTGTGGCTCTGCATTGTGGCAGCTATGGTTACACAATGGCATAATGAAGT
CTGGAAAACTCACCTGACTGCTGATGTGCAATTCAGAGTGGCAGAAGTAATTTAGGAAAC
TGTCAACAGAAAAGCAGCCTAAATGCAGCCCATAGGCAGGGCTGATGTTTAAAATTCATA
AAGGATCAAGTTTTCTTTTGTCCTCTGCTTTCTTTTCCCTGTTATGTTTTCTCAGGTCGT
GATACAGTTGGAAATATAAAATCACAGTAGTCTTCATTTAAAAAATGCTAATTGAAAGTA
GTAGAAACTGTCCTTTTTTCATGTCTTTAATCTAATCCAAGATTGTGTTAAGGCAAAATA
TTCTACATTCCACATCTGCTGCATAACTCTTTTGTTTAAAACCTGCTGTCTCTTTACTTT
CCTGTGTAGTAAATTATATTAGGGCATCCAGCCTGGTATGTCTTATTGCATGTAAAGTGC
CATTTATATTTTGGAAAACTGCTGTATAGAATGGATTAATTTACATTGTGTATAAAGCCA
CAAATATGTATTTTCCCATATTGAATCTATATTGCAATGATGTTTTTTAGCTTTTAAATA
TTTTAATATGTAAAGTTCAGACTGATGTGACTAATAAACAGCTGATGAAATGATGTCTGA
TTTATATATTAAAACTTATGCTATATTGTATGTATT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TGGATTTTAGATAATGATATTAGTGATCTGGGTCTAGAACTGACTTTTTCTGTTGAGACT
GATGTGTTTGGAGCAATGGAAGAGGTGCCTTTGAAACCTGGGGGTGGAAGTATTCTTGTT
ACACAAAATAACAAAGCGGAGTATGTCCAGCTTGTCACTGAACTTCGAATGACCAGAGCC
ATCCAGCCTCAGATCAATGCTTTTTTACAGGGCTTTCATATGTTCATTCCACCTTCCCTC
ATACAGCTTTTTGATGAATATGAATTGGAGCTCCTGCTGTCTGGCATGCCAGAAATTGAT
GTGAGTGACTGGATAAAAAATACAGAATACACAAGTGGCTATGAAAGAGAAGATCCAGTT
ATTCAGTGGTTCTGGGAAGTTGTGGAAGATATTACACCGGAGGAGAGAGTTCTTCTCTTG
CAGTTTGTTACTGGCAGTTCCAGGGTCCCACATGGAGGATTTGCTAATATCATGGGTGGA
AGTGGATTGCAGAACTTTACAATTGCTGCTGTGCCATATACTCCAAATCTTCTACCGACC
TCGAGCACGTGCATCAACATGCTCAAGTTACCTGAATATCCAAGTAAGGAAATACTCAAG
GACAGGCTTCTTGTGGCTCTGCATTGTGGCAGCTATGGTTACACAATGGCATAATGAAGT
CTGGAAAACTCACCTGACTGCTGATGTGCAATTCAGAGTGGCAGAAGTAATTTAGGAAAC
TGTCAACAGAAAAGCAGCCTAAATGCAGCCCATAGGCAGGGCTGATGTTTAAAATTCATA
AAGGATCAAGTTTTCTTTTGTCCTCTGCTTTCTTTTCCCTGTTATGTTTTCTCAGGTCGT
GATACAGTTGGAAATATAAAATCACAGTAGTCTTCATTTAAAAAATGCTAATTGAAAGTA
GTAGAAACTGTCCTTTTTTCATGTCTTTAATCTAATCCAAGATTGTGTTAAGGCAAAATA
TTCTACATTCCACATCTGCTGCATAACTCTTTTGTTTAAAACCTGCTGTCTCTTTACTTT
CCTGTGTAGTAAATTATATTAGGGCATCCAGCCTGGTATGTCTTATTGCATGTAAAGTGC
CATTTATATTTTGGAAAACTGCTGTATAGAATGGATTAATTTACATTGTGTATAAAGCCA
CAAATATGTATTTTCCCATATTGAATCTATATTGCAATGATGTTTTTTAGCTTTTAAATA
TTTTAATATGTAAAGTTCAGACTGATGTGACTAATAAACAGCTGATGAAATGATGTCTGA
TTTATATATTAAAACTTATGCTATATTGTATGTATT

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               gi|60360392|dbj|BAD90440.1|

Coded protein: 1 entry(ies)

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Protein identifier


               
               gi|60360392|dbj|BAD90440.1|

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

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

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               590-709, - strand, RNAz p=0.854889
               

               
               1018-1137, + strand, RNAz p=0.678772

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


               
               590-709, - strand, RNAz p=0.854889
               

               
               1018-1137, + strand, RNAz p=0.678772

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of AB037741, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of AB037741, +

Aligned organism(s): 21 entry(ies)

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Aligned organism(s): 21 entry(ies)

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               1-136, gnl|bosTau2|chr9 (24657334-24657199)
               

               
               1-136, gnl|canFam2|chr12 (65256365-65256599)
               

               
               1-136, gnl|danRer3|chr25 (1677591-1677813)
               

               
               1-136, gnl|dasNov1|scaffold_7189 (35855-35621)
               

               
               1-136, gnl|echTel1|scaffold_314533 (118358-118609)
               

               
               1-136, gnl|fr1|chrUn (278049766-278049544)
               

               
               1-136, gnl|galGal2|chr3 (67431833-67431595)
               

               
               1-136, gnl|hg17|chr6 (105325746-105325981)
               

               
               1-136, gnl|Hg17|chr6 (105325895-105325760)
               

               
               1-136, gnl|loxAfr1|scaffold_3680 (174-421)
               

               
               1-136, gnl|mm7|chr10 (45489095-45488857)
               

               
               1-136, gnl|Mm7|chr10 (45488944-45489079)
               

               
               1-136, gnl|monDom2|scaffold_0 (116982097-116981862)
               

               
               1-136, gnl|panTro1|chr5 (107373330-107373565)
               

               
               1-136, gnl|rheMac2|chr4 (100791304-100791539)
               

               
               1-136, gnl|rn3|chr20 (49974277-49974039)
               

               
               1-136, gnl|tetNig1|chrUn_random (137854736-137854949)
               

               
               1-136, gnl|xenTro1|scaffold_599 (434157-434387)
               


               
               551-1296, gnl|bosTau2|chr9 (24627116-24626373)
               

               
               551-1296, gnl|Hg17|chr6 (105284333-105283600)
               

               
               551-1296, gnl|Mm7|chr10 (45523248-45523976)

Aligned organism(s): 21 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


               
               1-136, gnl|bosTau2|chr9 (24657334-24657199)
               

               
               1-136, gnl|canFam2|chr12 (65256365-65256599)
               

               
               1-136, gnl|danRer3|chr25 (1677591-1677813)
               

               
               1-136, gnl|dasNov1|scaffold_7189 (35855-35621)
               

               
               1-136, gnl|echTel1|scaffold_314533 (118358-118609)
               

               
               1-136, gnl|fr1|chrUn (278049766-278049544)
               

               
               1-136, gnl|galGal2|chr3 (67431833-67431595)
               

               
               1-136, gnl|hg17|chr6 (105325746-105325981)
               

               
               1-136, gnl|Hg17|chr6 (105325895-105325760)
               

               
               1-136, gnl|loxAfr1|scaffold_3680 (174-421)
               

               
               1-136, gnl|mm7|chr10 (45489095-45488857)
               

               
               1-136, gnl|Mm7|chr10 (45488944-45489079)
               

               
               1-136, gnl|monDom2|scaffold_0 (116982097-116981862)
               

               
               1-136, gnl|panTro1|chr5 (107373330-107373565)
               

               
               1-136, gnl|rheMac2|chr4 (100791304-100791539)
               

               
               1-136, gnl|rn3|chr20 (49974277-49974039)
               

               
               1-136, gnl|tetNig1|chrUn_random (137854736-137854949)
               

               
               1-136, gnl|xenTro1|scaffold_599 (434157-434387)
               


               
               551-1296, gnl|bosTau2|chr9 (24627116-24626373)
               

               
               551-1296, gnl|Hg17|chr6 (105284333-105283600)
               

               
               551-1296, gnl|Mm7|chr10 (45523248-45523976)

Expressed library(ies): 16 entry(ies)

More info

Expressed library(ies): 16 entry(ies)

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               cbl (0.45919)
               

               
               fco (0.314416)
               

               
               lun (0.300978)
               

               
               fce (0.271592)
               

               
               thg (0.253582)
               

               
               tra (0.246184)
               

               
               tes (0.207814)
               

               
               gul (0.177588)
               

               
               mga (0.160205)
               

               
               ski (0.146735)
               

               
               liv (0.146284)
               

               
               lin (0.145603)
               

               
               kid (0.129735)
               

               
               ova (0.129132)
               

               
               ret (0.128733)
               

               
               med (0.116252)

Expressed library(ies): 16 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


               
               cbl (0.45919)
               

               
               fco (0.314416)
               

               
               lun (0.300978)
               

               
               fce (0.271592)
               

               
               thg (0.253582)
               

               
               tra (0.246184)
               

               
               tes (0.207814)
               

               
               gul (0.177588)
               

               
               mga (0.160205)
               

               
               ski (0.146735)
               

               
               liv (0.146284)
               

               
               lin (0.145603)
               

               
               kid (0.129735)
               

               
               ova (0.129132)
               

               
               ret (0.128733)
               

               
               med (0.116252)

	590-709, - strand, RNAz p=0.854889
	1018-1137, + strand, RNAz p=0.678772

	1-136, gnl\|bosTau2\|chr9 (24657334-24657199)
	1-136, gnl\|canFam2\|chr12 (65256365-65256599)
	1-136, gnl\|danRer3\|chr25 (1677591-1677813)
	1-136, gnl\|dasNov1\|scaffold_7189 (35855-35621)
	1-136, gnl\|echTel1\|scaffold_314533 (118358-118609)
	1-136, gnl\|fr1\|chrUn (278049766-278049544)
	1-136, gnl\|galGal2\|chr3 (67431833-67431595)
	1-136, gnl\|hg17\|chr6 (105325746-105325981)
	1-136, gnl\|Hg17\|chr6 (105325895-105325760)
	1-136, gnl\|loxAfr1\|scaffold_3680 (174-421)
	1-136, gnl\|mm7\|chr10 (45489095-45488857)
	1-136, gnl\|Mm7\|chr10 (45488944-45489079)
	1-136, gnl\|monDom2\|scaffold_0 (116982097-116981862)
	1-136, gnl\|panTro1\|chr5 (107373330-107373565)
	1-136, gnl\|rheMac2\|chr4 (100791304-100791539)
	1-136, gnl\|rn3\|chr20 (49974277-49974039)
	1-136, gnl\|tetNig1\|chrUn_random (137854736-137854949)
	1-136, gnl\|xenTro1\|scaffold_599 (434157-434387)

	551-1296, gnl\|bosTau2\|chr9 (24627116-24626373)
	551-1296, gnl\|Hg17\|chr6 (105284333-105283600)
	551-1296, gnl\|Mm7\|chr10 (45523248-45523976)

	cbl (0.45919)
	fco (0.314416)
	lun (0.300978)
	fce (0.271592)
	thg (0.253582)
	tra (0.246184)
	tes (0.207814)
	gul (0.177588)
	mga (0.160205)
	ski (0.146735)
	liv (0.146284)
	lin (0.145603)
	kid (0.129735)
	ova (0.129132)
	ret (0.128733)
	med (0.116252)