Non-Coding RNA Search

Ss1.1-Pig4-TMW8056D19.5

Sequence:


               
               CCGCAGCAGCGGATGCAGCATCACATGCAGCAGATACAGCAGGGGAACATGGGACAGGTG
GGCCAGCTCCCCCAGGCCCTGGGAGCAGAGGCAGGAGCCAGTCTGCAGGCCTATCAGCAG
CGACTCCTTCAGCAACAGATGGGGTCGCCTGCTCAGCCCAACCCCATGAGCCCCCAACAG
CACATGCTCCCGAGCCAGGCTCAGTCCCCACACCTGCAAGGCCAGCAGCTCCCTTCTCTC
TCCAATCAAGTGCGTTCTCCCCAGCCTGTCCCCTCTCCACGGCCGCAGTCCCAGCCCCCC
CACTCCAGCCCTTCCCCAAGGATGCAGCCTCAGCCTTCGCCACACCATGTCTCCCCACAG
ACCAGTTCTCCACATCCTGGACTGGTAGCCGCCCCGGGCAACCCCATGGAACAAGGGCAT
TTTGCCAGCCCAGACCAGAATACAATGCTTTCTCAGCTCGCTAGCAATCCGGGCATGGCA
AACCTCCATGGTGCAAGCGCCACGGACCTGGGACTCAGCACCGAGAACTCGGACTTGAAT
TCAAACCTCTCACAGAGTACACTAGACATACACTAGAGACACCTTGTAGTATTTTGGGAG
CAAAAAAATTATTTTCTCTTAACAAGACTTTTTGTACTGAAAACAATTTTTTTGAATCTT
TCTTAGCCTAAAAGACAATTTTCCTTGGAAAACACAAGAACTGTGCAGTAGCTGTTTGTG
GTTTAAAGCAAACATGCAAGGTGAACCTGAGGGATGATAGAATACAAAGAATATATTTTT
GTTATGGCTGGTTACCACCAGCCTGGTTTTTTTCCCTTGTGTGTGTGGTTCAAGTGTGCA
CTGGGAGGAGGCTGAGGTCTGTGAAGCCAACCACATGCTCCTGCCTTGCACCTCCAATAG
GTTTTATTATTTTTTTTAAATTAATGAAAATATGTAATATTAATAGTTATTATTTACTGG
TGCAGATGGTTGACATTTTTCCCTATTTTCCTCACTTTATGGAAGAGTTAAAAAAGAACA
TTTCTAAAACCAGAGGACAAAAGGGGTTAATGTTACTTTAAAATTACATTCTATATATAT
ATAAATATATATAAATATATATTAAAATACCAATTTTTTTCTCTGGGTGCAAAGATGTTC
ATTCTTTTAAAAATGGAAAAGAAAAAAAAAAAAAAACCTCCCCCTTTCTCCCCTCAAGTC
AACTTTTGTGCTCCAGAAAATTTTCTATTCCATAAGTCTGAGCGTAAAAACTTCAAGTAT
TAAAGTAATTTGTACATGTAGAGAGAAAAATGACTTTTTTCAAAATATACAGGGGCAGCT
GCCAAATTGATGTATTATATATTGTGGTTCTGTTTCTTGAAAGAATTTTTTTCGTTATTT
TTACATCTAACAAAGGAAAAATTAAAAAGAGGGTAAGAAACGATTCCAGTGGGATGATTT
TAACATGCAAAATGTCCCTGGGGATTCTTCTTTGCTTGCTTTCTTCCTCCTTATCCTGCC
CCCCACACACACACACACTTTCTGTAAAACTTGAAACTAGAAAGCAAAAACCCTCAACTT
GTAAATCATGCAATTAAAGTTGATTACTTATAAATATGAACTTTGGATCACTGTATAGAC
TGTTAAATTTGATTTCTTATTACCTATTGTTAAATAAACTGTGTGAGACAGAAAAAAAAA
AAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CCGCAGCAGCGGATGCAGCATCACATGCAGCAGATACAGCAGGGGAACATGGGACAGGTG
GGCCAGCTCCCCCAGGCCCTGGGAGCAGAGGCAGGAGCCAGTCTGCAGGCCTATCAGCAG
CGACTCCTTCAGCAACAGATGGGGTCGCCTGCTCAGCCCAACCCCATGAGCCCCCAACAG
CACATGCTCCCGAGCCAGGCTCAGTCCCCACACCTGCAAGGCCAGCAGCTCCCTTCTCTC
TCCAATCAAGTGCGTTCTCCCCAGCCTGTCCCCTCTCCACGGCCGCAGTCCCAGCCCCCC
CACTCCAGCCCTTCCCCAAGGATGCAGCCTCAGCCTTCGCCACACCATGTCTCCCCACAG
ACCAGTTCTCCACATCCTGGACTGGTAGCCGCCCCGGGCAACCCCATGGAACAAGGGCAT
TTTGCCAGCCCAGACCAGAATACAATGCTTTCTCAGCTCGCTAGCAATCCGGGCATGGCA
AACCTCCATGGTGCAAGCGCCACGGACCTGGGACTCAGCACCGAGAACTCGGACTTGAAT
TCAAACCTCTCACAGAGTACACTAGACATACACTAGAGACACCTTGTAGTATTTTGGGAG
CAAAAAAATTATTTTCTCTTAACAAGACTTTTTGTACTGAAAACAATTTTTTTGAATCTT
TCTTAGCCTAAAAGACAATTTTCCTTGGAAAACACAAGAACTGTGCAGTAGCTGTTTGTG
GTTTAAAGCAAACATGCAAGGTGAACCTGAGGGATGATAGAATACAAAGAATATATTTTT
GTTATGGCTGGTTACCACCAGCCTGGTTTTTTTCCCTTGTGTGTGTGGTTCAAGTGTGCA
CTGGGAGGAGGCTGAGGTCTGTGAAGCCAACCACATGCTCCTGCCTTGCACCTCCAATAG
GTTTTATTATTTTTTTTAAATTAATGAAAATATGTAATATTAATAGTTATTATTTACTGG
TGCAGATGGTTGACATTTTTCCCTATTTTCCTCACTTTATGGAAGAGTTAAAAAAGAACA
TTTCTAAAACCAGAGGACAAAAGGGGTTAATGTTACTTTAAAATTACATTCTATATATAT
ATAAATATATATAAATATATATTAAAATACCAATTTTTTTCTCTGGGTGCAAAGATGTTC
ATTCTTTTAAAAATGGAAAAGAAAAAAAAAAAAAAACCTCCCCCTTTCTCCCCTCAAGTC
AACTTTTGTGCTCCAGAAAATTTTCTATTCCATAAGTCTGAGCGTAAAAACTTCAAGTAT
TAAAGTAATTTGTACATGTAGAGAGAAAAATGACTTTTTTCAAAATATACAGGGGCAGCT
GCCAAATTGATGTATTATATATTGTGGTTCTGTTTCTTGAAAGAATTTTTTTCGTTATTT
TTACATCTAACAAAGGAAAAATTAAAAAGAGGGTAAGAAACGATTCCAGTGGGATGATTT
TAACATGCAAAATGTCCCTGGGGATTCTTCTTTGCTTGCTTTCTTCCTCCTTATCCTGCC
CCCCACACACACACACACTTTCTGTAAAACTTGAAACTAGAAAGCAAAAACCCTCAACTT
GTAAATCATGCAATTAAAGTTGATTACTTATAAATATGAACTTTGGATCACTGTATAGAC
TGTTAAATTTGATTTCTTATTACCTATTGTTAAATAAACTGTGTGAGACAGAAAAAAAAA
AAAAAAAAAAAA

Coded protein: 1 entry(ies)

More info

Coded protein: 1 entry(ies)

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               Q5RJS0_RAT

Coded protein: 1 entry(ies)

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Protein identifier


               
               Q5RJS0_RAT

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

More info

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

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               40-276, - strand, RNAz p=0.980944
               

               
               397-553, - strand, RNAz p=0.968274
               

               
               713-871, - strand, RNAz p=0.983009
               

               
               951-1062, - strand, RNAz p=0.882205

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


               
               40-276, - strand, RNAz p=0.980944
               

               
               397-553, - strand, RNAz p=0.968274
               

               
               713-871, - strand, RNAz p=0.983009
               

               
               951-1062, - strand, RNAz p=0.882205

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               1-1672, gnl|bosTau2|chr5 (71050937-71052619)
               

               
               1-1672, gnl|Hg17|chr22 (39898890-39900579)
               

               
               1-1672, gnl|Mm7|chr15 (81734796-81736465)
               


               
               115-458, gnl|bosTau2|chr25 (638883-638537)
               

               
               115-458, gnl|Hg17|chr16 (3718160-3717814)
               

               
               115-458, gnl|Mm7|chr16 (3756053-3755707)

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


               
               1-1672, gnl|bosTau2|chr5 (71050937-71052619)
               

               
               1-1672, gnl|Hg17|chr22 (39898890-39900579)
               

               
               1-1672, gnl|Mm7|chr15 (81734796-81736465)
               


               
               115-458, gnl|bosTau2|chr25 (638883-638537)
               

               
               115-458, gnl|Hg17|chr16 (3718160-3717814)
               

               
               115-458, gnl|Mm7|chr16 (3756053-3755707)

Expressed library(ies): 29 entry(ies)

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Expressed library(ies): 29 entry(ies)

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               isp (0.451128)
               

               
               sin (0.349895)
               

               
               thg (0.253582)
               

               
               mgp (0.230681)
               

               
               nms (0.213858)
               

               
               mas (0.210305)
               

               
               aor (0.195274)
               

               
               col (0.195008)
               

               
               nep (0.183925)
               

               
               fbs (0.175346)
               

               
               eye (0.170503)
               

               
               cut (0.169924)
               

               
               cki (0.165235)
               

               
               nco (0.161734)
               

               
               csp (0.161186)
               

               
               mga (0.160205)
               

               
               eli (0.151814)
               

               
               bfe (0.149858)
               

               
               fat (0.147427)
               

               
               ski (0.146735)
               

               
               pla (0.133672)
               

               
               ret (0.128733)
               

               
               ese (0.126502)
               

               
               tra (0.123092)
               

               
               eru (0.120048)
               

               
               med (0.116252)
               

               
               ecc (0.115035)
               

               
               jca (0.11396)
               

               
               ldo (0.0970026)

Expressed library(ies): 29 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


               
               isp (0.451128)
               

               
               sin (0.349895)
               

               
               thg (0.253582)
               

               
               mgp (0.230681)
               

               
               nms (0.213858)
               

               
               mas (0.210305)
               

               
               aor (0.195274)
               

               
               col (0.195008)
               

               
               nep (0.183925)
               

               
               fbs (0.175346)
               

               
               eye (0.170503)
               

               
               cut (0.169924)
               

               
               cki (0.165235)
               

               
               nco (0.161734)
               

               
               csp (0.161186)
               

               
               mga (0.160205)
               

               
               eli (0.151814)
               

               
               bfe (0.149858)
               

               
               fat (0.147427)
               

               
               ski (0.146735)
               

               
               pla (0.133672)
               

               
               ret (0.128733)
               

               
               ese (0.126502)
               

               
               tra (0.123092)
               

               
               eru (0.120048)
               

               
               med (0.116252)
               

               
               ecc (0.115035)
               

               
               jca (0.11396)
               

               
               ldo (0.0970026)

	40-276, - strand, RNAz p=0.980944
	397-553, - strand, RNAz p=0.968274
	713-871, - strand, RNAz p=0.983009
	951-1062, - strand, RNAz p=0.882205

	1-1672, gnl\|bosTau2\|chr5 (71050937-71052619)
	1-1672, gnl\|Hg17\|chr22 (39898890-39900579)
	1-1672, gnl\|Mm7\|chr15 (81734796-81736465)

	115-458, gnl\|bosTau2\|chr25 (638883-638537)
	115-458, gnl\|Hg17\|chr16 (3718160-3717814)
	115-458, gnl\|Mm7\|chr16 (3756053-3755707)

	isp (0.451128)
	sin (0.349895)
	thg (0.253582)
	mgp (0.230681)
	nms (0.213858)
	mas (0.210305)
	aor (0.195274)
	col (0.195008)
	nep (0.183925)
	fbs (0.175346)
	eye (0.170503)
	cut (0.169924)
	cki (0.165235)
	nco (0.161734)
	csp (0.161186)
	mga (0.160205)
	eli (0.151814)
	bfe (0.149858)
	fat (0.147427)
	ski (0.146735)
	pla (0.133672)
	ret (0.128733)
	ese (0.126502)
	tra (0.123092)
	eru (0.120048)
	med (0.116252)
	ecc (0.115035)
	jca (0.11396)
	ldo (0.0970026)