Non-Coding RNA Search

Ss1.1-Pig4-TMW8060G01.3

Sequence:


               
               AAAATGATCTTCCGTGGGAAGAAGTAAGGGAGAGGGATACCTAAATATAGCTCTCAATTA
TTTTCAAATTGGACCCAGCATTATAATACAGGTTGGCCCCAAAGGCTGGGAGGGGTGGGC
CAGGGGAAGGCAATTGATTATCATTATTTGTTTTCAGAATGAGATGGGAGCATCTTTCCT
TTGCCATGTGCTTTGTGTTTGATAACATCATACTTGGGTTAAAACCAGACAACTCAGCAC
AAAGCCTTGAGTATAAATTGTTGGAATCAAAACATCTCATTCTGAATACTTGGTTTAGTT
TTTTTTCTTTTCTTTTTTTTTTTTTTAATGGGGGTGGGAGGGATGTTACTGTGCCCCAAA
AGGGAGGGTATCTGCACTAAGGATTTAGAAACACTTTGGAAGCTCACAACCTCATCAGAA
ACTGCCTTTAGCCACACTCCTGACCTTTTAGATGAGTAACAAAAAAAGACAAAATCAGTT
CTTGGGAATTAAGCCATGTTATTTTAATTTGCTACTTTTTTCAGTGTTCTGTGTATCTTA
AAAATTGTTATTGTCGAATCATTTTCTGGCAAAATACCTTTGTCAAGCAAAATTACTGGC
CTCATGGGAGTTGATGTCAGTCAACTTTTTGGTGAGCTGAAGTGGACTTTGGTGAACTTG
TAGTTCTACTTTATATCCCTAGAGATAGTTTTTTTAAAAAACTTCCAAAGAAAATCCACT
CTCCTTTCTGATCCAAAAACTCATCTTTGGGGTAGAGAGTTAAGTGTCCAAAGGTTAATA
GTTCATGAGGTCAGAGGGAGCTAGCCTGGCACCTGGACTCTGCCCCTCCATAGCTGACAG
ATCCCAACAGAAGTGTATTTAAATTCTCCAGTAGACAATACTGGGCAGGGCAAGGGAGGG
GGTAGGGTTGGGTTAATGAAGATACAGGCGACTGTATTTTAACCAGTGGTTGTGGGGGAG
GGGTGCCTGGAGAAAACAAAGTCACTATTCCCTTTTGTGAAACAAAATTAAAACTTGAAA
AAATTTTTTTTGTTCAGTAAAAATGGGATAGAATTCCAGTGTCCCTAGTCACAAGGGACC
AGTTCCACTGAGAAGTGAACAGTGGGGACTCAATTTTGAAAACATTTGGGGAAAGGGAAA
ATTGGCTTTCTGTTAATTGGCAAATGTTCCAGTGTGGCTCTGTTTTTGTTGGAATGTGTT
ATGTTGTATGTACACATATGGACCAGAGTCTCTGCTGAGTTTATAAGGTTCAGAAAAGAT
GGTTGATAAAATCTTGGGTTTTTTTGTTAGTTTATCTCAATAAAAGCCCACTGGAACTCC
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AAAATGATCTTCCGTGGGAAGAAGTAAGGGAGAGGGATACCTAAATATAGCTCTCAATTA
TTTTCAAATTGGACCCAGCATTATAATACAGGTTGGCCCCAAAGGCTGGGAGGGGTGGGC
CAGGGGAAGGCAATTGATTATCATTATTTGTTTTCAGAATGAGATGGGAGCATCTTTCCT
TTGCCATGTGCTTTGTGTTTGATAACATCATACTTGGGTTAAAACCAGACAACTCAGCAC
AAAGCCTTGAGTATAAATTGTTGGAATCAAAACATCTCATTCTGAATACTTGGTTTAGTT
TTTTTTCTTTTCTTTTTTTTTTTTTTAATGGGGGTGGGAGGGATGTTACTGTGCCCCAAA
AGGGAGGGTATCTGCACTAAGGATTTAGAAACACTTTGGAAGCTCACAACCTCATCAGAA
ACTGCCTTTAGCCACACTCCTGACCTTTTAGATGAGTAACAAAAAAAGACAAAATCAGTT
CTTGGGAATTAAGCCATGTTATTTTAATTTGCTACTTTTTTCAGTGTTCTGTGTATCTTA
AAAATTGTTATTGTCGAATCATTTTCTGGCAAAATACCTTTGTCAAGCAAAATTACTGGC
CTCATGGGAGTTGATGTCAGTCAACTTTTTGGTGAGCTGAAGTGGACTTTGGTGAACTTG
TAGTTCTACTTTATATCCCTAGAGATAGTTTTTTTAAAAAACTTCCAAAGAAAATCCACT
CTCCTTTCTGATCCAAAAACTCATCTTTGGGGTAGAGAGTTAAGTGTCCAAAGGTTAATA
GTTCATGAGGTCAGAGGGAGCTAGCCTGGCACCTGGACTCTGCCCCTCCATAGCTGACAG
ATCCCAACAGAAGTGTATTTAAATTCTCCAGTAGACAATACTGGGCAGGGCAAGGGAGGG
GGTAGGGTTGGGTTAATGAAGATACAGGCGACTGTATTTTAACCAGTGGTTGTGGGGGAG
GGGTGCCTGGAGAAAACAAAGTCACTATTCCCTTTTGTGAAACAAAATTAAAACTTGAAA
AAATTTTTTTTGTTCAGTAAAAATGGGATAGAATTCCAGTGTCCCTAGTCACAAGGGACC
AGTTCCACTGAGAAGTGAACAGTGGGGACTCAATTTTGAAAACATTTGGGGAAAGGGAAA
ATTGGCTTTCTGTTAATTGGCAAATGTTCCAGTGTGGCTCTGTTTTTGTTGGAATGTGTT
ATGTTGTATGTACACATATGGACCAGAGTCTCTGCTGAGTTTATAAGGTTCAGAAAAGAT
GGTTGATAAAATCTTGGGTTTTTTTGTTAGTTTATCTCAATAAAAGCCCACTGGAACTCC
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Predicted RNA structure(s): 1 entry(ies)

More info

Predicted RNA structure(s): 1 entry(ies)

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               892-1165, + strand, RNAz p=0.972374

Predicted RNA structure(s): 1 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


               
               892-1165, + strand, RNAz p=0.972374

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               1036-1007, AM033209 KN-252-spleen, Bos taurus Bos taurus cDNA clone 
(emb|AM033209.1|), blast E-value=3e-38, identity=93.97% 
               

               
               1036-1007, 4114299 BARC 9BOV Bos taurus cDNA clone 9BOV44_D02 3', mRNA 
(gb|CK981847.1|), blast E-value=3e-38, identity=93.97% 
               

               
               954-1165, ip41b04.b1 Brain - Cerebellum Library (DOGEST8) Canis familiaris 
(gb|CK995700.1|), blast E-value=0, identity=90.7% 
               

               
               936-1165, ip41b04.g1 Brain - Cerebellum Library (DOGEST8) Canis familiaris 
(gb|CN003976.1|), blast E-value=0, identity=90.99% 
               

               
               892-1165, io47c06.b1 Whole Heart Library (DOGEST5) Canis familiaris cDNA, 
(gb|CX010560.1|), blast E-value=0, identity=90.25% 
               

               
               892-1165, GL-Cf-684 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN743892.1|), blast E-value=0, identity=90.61%

Similar Transcript(s): 6 entry(ies)

Help | Less info

PigEST conread start position and end position of sequence similarity to another annotated EST (NCBI dbEST),
transcript identifier and annotation,
blast E-value,
PigEST conread identity to the similar transcript


               
               1036-1007, AM033209 KN-252-spleen, Bos taurus Bos taurus cDNA clone 
(emb|AM033209.1|), blast E-value=3e-38, identity=93.97% 
               

               
               1036-1007, 4114299 BARC 9BOV Bos taurus cDNA clone 9BOV44_D02 3', mRNA 
(gb|CK981847.1|), blast E-value=3e-38, identity=93.97% 
               

               
               954-1165, ip41b04.b1 Brain - Cerebellum Library (DOGEST8) Canis familiaris 
(gb|CK995700.1|), blast E-value=0, identity=90.7% 
               

               
               936-1165, ip41b04.g1 Brain - Cerebellum Library (DOGEST8) Canis familiaris 
(gb|CN003976.1|), blast E-value=0, identity=90.99% 
               

               
               892-1165, io47c06.b1 Whole Heart Library (DOGEST5) Canis familiaris cDNA, 
(gb|CX010560.1|), blast E-value=0, identity=90.25% 
               

               
               892-1165, GL-Cf-684 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN743892.1|), blast E-value=0, identity=90.61%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1321, gnl|bosTau2|chr15 (14851426-14852712)
               

               
               1-1321, gnl|Hg17|chr11 (118124960-118123684)
               

               
               1-1321, gnl|Mm7|chr9 (44573793-44575076)

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


               
               1-1321, gnl|bosTau2|chr15 (14851426-14852712)
               

               
               1-1321, gnl|Hg17|chr11 (118124960-118123684)
               

               
               1-1321, gnl|Mm7|chr9 (44573793-44575076)

Expressed library(ies): 37 entry(ies)

More info

Expressed library(ies): 37 entry(ies)

Help | Less info


               
               hyp (0.571347)
               

               
               pty (0.428143)
               

               
               lnt (0.426925)
               

               
               aor (0.390549)
               

               
               fty (0.351679)
               

               
               cbl (0.344392)
               

               
               cje (0.330469)
               

               
               spl (0.286369)
               

               
               ese (0.253004)
               

               
               eru (0.240096)
               

               
               ebs (0.236602)
               

               
               pan (0.23596)
               

               
               med (0.232504)
               

               
               fcc (0.197785)
               

               
               nlu (0.191681)
               

               
               ill (0.175593)
               

               
               fbs (0.175346)
               

               
               eye (0.170503)
               

               
               cut (0.169924)
               

               
               fhi (0.169578)
               

               
               nje (0.16592)
               

               
               nco (0.161734)
               

               
               csp (0.161186)
               

               
               ski (0.146735)
               

               
               nca (0.136874)
               

               
               che (0.136314)
               

               
               ssp (0.13552)
               

               
               nmm (0.132802)
               

               
               ret (0.128733)
               

               
               thg (0.126791)
               

               
               bla (0.124347)
               

               
               clu (0.119646)
               

               
               ecc (0.115035)
               

               
               spc (0.113366)
               

               
               cty (0.10408)
               

               
               nbm (0.0993246)
               

               
               ldo (0.0970026)

Expressed library(ies): 37 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


               
               hyp (0.571347)
               

               
               pty (0.428143)
               

               
               lnt (0.426925)
               

               
               aor (0.390549)
               

               
               fty (0.351679)
               

               
               cbl (0.344392)
               

               
               cje (0.330469)
               

               
               spl (0.286369)
               

               
               ese (0.253004)
               

               
               eru (0.240096)
               

               
               ebs (0.236602)
               

               
               pan (0.23596)
               

               
               med (0.232504)
               

               
               fcc (0.197785)
               

               
               nlu (0.191681)
               

               
               ill (0.175593)
               

               
               fbs (0.175346)
               

               
               eye (0.170503)
               

               
               cut (0.169924)
               

               
               fhi (0.169578)
               

               
               nje (0.16592)
               

               
               nco (0.161734)
               

               
               csp (0.161186)
               

               
               ski (0.146735)
               

               
               nca (0.136874)
               

               
               che (0.136314)
               

               
               ssp (0.13552)
               

               
               nmm (0.132802)
               

               
               ret (0.128733)
               

               
               thg (0.126791)
               

               
               bla (0.124347)
               

               
               clu (0.119646)
               

               
               ecc (0.115035)
               

               
               spc (0.113366)
               

               
               cty (0.10408)
               

               
               nbm (0.0993246)
               

               
               ldo (0.0970026)

	1036-1007, AM033209 KN-252-spleen, Bos taurus Bos taurus cDNA clone (emb\|AM033209.1\|), blast E-value=3e-38, identity=93.97%
	1036-1007, 4114299 BARC 9BOV Bos taurus cDNA clone 9BOV44_D02 3', mRNA (gb\|CK981847.1\|), blast E-value=3e-38, identity=93.97%
	954-1165, ip41b04.b1 Brain - Cerebellum Library (DOGEST8) Canis familiaris (gb\|CK995700.1\|), blast E-value=0, identity=90.7%
	936-1165, ip41b04.g1 Brain - Cerebellum Library (DOGEST8) Canis familiaris (gb\|CN003976.1\|), blast E-value=0, identity=90.99%
	892-1165, io47c06.b1 Whole Heart Library (DOGEST5) Canis familiaris cDNA, (gb\|CX010560.1\|), blast E-value=0, identity=90.25%
	892-1165, GL-Cf-684 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue (gb\|DN743892.1\|), blast E-value=0, identity=90.61%

	1-1321, gnl\|bosTau2\|chr15 (14851426-14852712)
	1-1321, gnl\|Hg17\|chr11 (118124960-118123684)
	1-1321, gnl\|Mm7\|chr9 (44573793-44575076)

	hyp (0.571347)
	pty (0.428143)
	lnt (0.426925)
	aor (0.390549)
	fty (0.351679)
	cbl (0.344392)
	cje (0.330469)
	spl (0.286369)
	ese (0.253004)
	eru (0.240096)
	ebs (0.236602)
	pan (0.23596)
	med (0.232504)
	fcc (0.197785)
	nlu (0.191681)
	ill (0.175593)
	fbs (0.175346)
	eye (0.170503)
	cut (0.169924)
	fhi (0.169578)
	nje (0.16592)
	nco (0.161734)
	csp (0.161186)
	ski (0.146735)
	nca (0.136874)
	che (0.136314)
	ssp (0.13552)
	nmm (0.132802)
	ret (0.128733)
	thg (0.126791)
	bla (0.124347)
	clu (0.119646)
	ecc (0.115035)
	spc (0.113366)
	cty (0.10408)
	nbm (0.0993246)
	ldo (0.0970026)