Non-Coding RNA Search

Ss1.1-Mixg-0010d02.5.5

Sequence:


               
               TTATTTTTAAGTTAAGAAATAATGATTAATTTATGAAGAAATTATCTGGGACAAAAGTGG
GATTCCTTCCCTGGTTTTTTGTGTTTCGGGGGGTTTTGTTTCAGTGTTGTTTTTTTTTTT
TTTTTCTTCCTTTTTCTTTTTTCTTGTTTTTTTTTCTTTCTTTTTTTTTTTTGCAGTCCT
CTGATCCCATCTTTCTGCCCCACAATGTGAGCAGCTACTCCTAATATTCTTCATTTGGTG
AGATAACTTTCAACTCTATGAATAACTTAGAGGTGATAGTGATAATTCCCGATTGCCAGA
ATGCCATCTGATAACCGAGAACAGAGATGGAAAGCGGGAGGGAGGAGTGCACAGGAGCGC
TGCTGTGCCTCCCACTCAGCCTTAGGAAAGGCAAGGCTCCGCCAGTGGGGCGTGGCGTCT
GTCATTTCTTTTGGACACCAGTTCTGAGCTTTAGTTTGAGAGCTTATTCCTGATTGTGCT
TTCCGCCCTCTTTCCTACCCTCAAGTTGAATAAATATGGTTGTACTTTTCTTATTATAAA
ATAAATGTCTGTAACTGCTGTACACTGCTGTAAACTTGTTAGAGAAAAAAATTAATCTGC
ATGTGGGCTCCTCAGTTACTGAGTTATTGTAATCCTCGTAAGTCTCAGTCCATGTTGGGG
GGAACATTCTCAAGAGGTGAACTACAGAAACACAAAGGCCTTCTTCTCTTTTCTTTTTTC
CCTGCAAATTCCTCCTTCACATGCTGTATCTTTAACCTGTGCTCATCGTTTTACCTAAGG
ACCAAAGCCCGACTGGCTTGAGAGGAGATTGTTGGTGTCTGTGGTTAAGAGACCACAGAT
TAGGGTAGAGAAGCACATTTCGTGGTTCATAGGAAACTCTAACTCCGAGGCTAGCTTATT
GTGAGTGTGTCGCATTGAGGGCACCTTTCACCTTCAGGCACATAAGATGTCTTAGCACCT
CTCCTGTGGTGCGGGGTGCTCCTTTTGAGTGTTTTGCAAGGAGCTTTAGGTACGGGTGAC
CGGGCAGGGCCATGTTCTATTGATGAGTTTCATGCACAGTTTAAAGACAACAGTTCACGT
TGACATCAAATGGTAGGTGTTTGGGAACGTGATTCCCAGTTGAGACTTCTTAAGTGTCTT
CCTCCCCCTCCACCATGAAAATTCGGTAAACTTGAAAGAAAAGTCATCTCCGAGTTTCTT
CATGTTAATCCAGAGGGAATGTGAACTGGCGAATTTAAAGTAAGGGCTACAATCTTTGAC
AGTCCCAAAGCAGTGCAAGTCCTTAGAAGTTAGTGGAGAAAAGTTTTCTTTCTACTCTCT
TGAGGAAATTTCTTAGGAATTTAGATGGGTAAAAGGTACCCTTGCCTTACTCCACTCTTA
TTTTCTTAGCCCCTTTTGCTTTCAAAATGTTTTAACTGATTTCATGTCATAGTAGAAAAT
CCCTTCTCCATCCCCACCCTTTGCCCTCCCAGGAAGTCAGTGCACTGATGATCTTTTTGG
GCTTCCCCCTCCAAAGGACCTTTTTCTGCACTGGAAGCCTCCACACCTAGCTCTTTGTTT
TGTTACTGCTGTGTTTAGATAATTGGACAGATCTCTGTGCCACACAGGAATTTTTTTTTT
TAAGAAAAATCTATAGATGAAAAATTACTAATGAAACTATGTGCGTGTATGTGCGTGCAA
CATGACAGTACAGTAGCACCTAAGGAGCTTGACTCTTGGTTCCTGTAAAACTGCAAATTG
ATGTGGTATCAATAAAAAGAACAAAATGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTATTTTTAAGTTAAGAAATAATGATTAATTTATGAAGAAATTATCTGGGACAAAAGTGG
GATTCCTTCCCTGGTTTTTTGTGTTTCGGGGGGTTTTGTTTCAGTGTTGTTTTTTTTTTT
TTTTTCTTCCTTTTTCTTTTTTCTTGTTTTTTTTTCTTTCTTTTTTTTTTTTGCAGTCCT
CTGATCCCATCTTTCTGCCCCACAATGTGAGCAGCTACTCCTAATATTCTTCATTTGGTG
AGATAACTTTCAACTCTATGAATAACTTAGAGGTGATAGTGATAATTCCCGATTGCCAGA
ATGCCATCTGATAACCGAGAACAGAGATGGAAAGCGGGAGGGAGGAGTGCACAGGAGCGC
TGCTGTGCCTCCCACTCAGCCTTAGGAAAGGCAAGGCTCCGCCAGTGGGGCGTGGCGTCT
GTCATTTCTTTTGGACACCAGTTCTGAGCTTTAGTTTGAGAGCTTATTCCTGATTGTGCT
TTCCGCCCTCTTTCCTACCCTCAAGTTGAATAAATATGGTTGTACTTTTCTTATTATAAA
ATAAATGTCTGTAACTGCTGTACACTGCTGTAAACTTGTTAGAGAAAAAAATTAATCTGC
ATGTGGGCTCCTCAGTTACTGAGTTATTGTAATCCTCGTAAGTCTCAGTCCATGTTGGGG
GGAACATTCTCAAGAGGTGAACTACAGAAACACAAAGGCCTTCTTCTCTTTTCTTTTTTC
CCTGCAAATTCCTCCTTCACATGCTGTATCTTTAACCTGTGCTCATCGTTTTACCTAAGG
ACCAAAGCCCGACTGGCTTGAGAGGAGATTGTTGGTGTCTGTGGTTAAGAGACCACAGAT
TAGGGTAGAGAAGCACATTTCGTGGTTCATAGGAAACTCTAACTCCGAGGCTAGCTTATT
GTGAGTGTGTCGCATTGAGGGCACCTTTCACCTTCAGGCACATAAGATGTCTTAGCACCT
CTCCTGTGGTGCGGGGTGCTCCTTTTGAGTGTTTTGCAAGGAGCTTTAGGTACGGGTGAC
CGGGCAGGGCCATGTTCTATTGATGAGTTTCATGCACAGTTTAAAGACAACAGTTCACGT
TGACATCAAATGGTAGGTGTTTGGGAACGTGATTCCCAGTTGAGACTTCTTAAGTGTCTT
CCTCCCCCTCCACCATGAAAATTCGGTAAACTTGAAAGAAAAGTCATCTCCGAGTTTCTT
CATGTTAATCCAGAGGGAATGTGAACTGGCGAATTTAAAGTAAGGGCTACAATCTTTGAC
AGTCCCAAAGCAGTGCAAGTCCTTAGAAGTTAGTGGAGAAAAGTTTTCTTTCTACTCTCT
TGAGGAAATTTCTTAGGAATTTAGATGGGTAAAAGGTACCCTTGCCTTACTCCACTCTTA
TTTTCTTAGCCCCTTTTGCTTTCAAAATGTTTTAACTGATTTCATGTCATAGTAGAAAAT
CCCTTCTCCATCCCCACCCTTTGCCCTCCCAGGAAGTCAGTGCACTGATGATCTTTTTGG
GCTTCCCCCTCCAAAGGACCTTTTTCTGCACTGGAAGCCTCCACACCTAGCTCTTTGTTT
TGTTACTGCTGTGTTTAGATAATTGGACAGATCTCTGTGCCACACAGGAATTTTTTTTTT
TAAGAAAAATCTATAGATGAAAAATTACTAATGAAACTATGTGCGTGTATGTGCGTGCAA
CATGACAGTACAGTAGCACCTAAGGAGCTTGACTCTTGGTTCCTGTAAAACTGCAAATTG
ATGTGGTATCAATAAAAAGAACAAAATGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

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

More info

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

Help | Less info


               
               234-382, - strand, RNAz p=0.999975
               

               
               1423-1541, + strand, RNAz p=0.905069

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


               
               234-382, - strand, RNAz p=0.999975
               

               
               1423-1541, + strand, RNAz p=0.905069

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               234-382, DB810323 full-length enriched swine cDNA library, adult liver Sus 
(dbj|DB810323.1|), blast E-value=0, identity=97.99% 
               

               
               234-382, DB813935 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB813935.1|), blast E-value=0, identity=96.64% 
               

               
               234-382, DB818831 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB818831.1|), blast E-value=0, identity=97.32% 
               

               
               243-366, CHESTM041 Goat mammary gland Capra hircus cDNA, mRNA sequence 
(emb|X73744.1|), blast E-value=7e-22, identity=86.29% 
               

               
               265-382, PADT0811015_H21F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB417511.1|), blast E-value=0, identity=100% 
               

               
               243-373, LB02952.CR_L21 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE355439.1|), 
blast E-value=3e-21, identity=85.5%

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


               
               234-382, DB810323 full-length enriched swine cDNA library, adult liver Sus 
(dbj|DB810323.1|), blast E-value=0, identity=97.99% 
               

               
               234-382, DB813935 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB813935.1|), blast E-value=0, identity=96.64% 
               

               
               234-382, DB818831 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB818831.1|), blast E-value=0, identity=97.32% 
               

               
               243-366, CHESTM041 Goat mammary gland Capra hircus cDNA, mRNA sequence 
(emb|X73744.1|), blast E-value=7e-22, identity=86.29% 
               

               
               265-382, PADT0811015_H21F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB417511.1|), blast E-value=0, identity=100% 
               

               
               243-373, LB02952.CR_L21 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE355439.1|), 
blast E-value=3e-21, identity=85.5%

Aligned organism(s): 2 entry(ies)

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Aligned organism(s): 2 entry(ies)

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               154-1770, gnl|bosTau2|chr29 (34947343-34945732)
               

               
               154-1770, gnl|Mm7|chr19 (7247247-7245773)

Aligned organism(s): 2 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


               
               154-1770, gnl|bosTau2|chr29 (34947343-34945732)
               

               
               154-1770, gnl|Mm7|chr19 (7247247-7245773)

Expressed library(ies): 30 entry(ies)

More info

Expressed library(ies): 30 entry(ies)

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               fat (0.884564)
               

               
               ece (0.687916)
               

               
               fcc (0.593354)
               

               
               spc (0.566829)
               

               
               fty (0.527519)
               

               
               fhi (0.508733)
               

               
               ecc (0.46014)
               

               
               fbs (0.350693)
               

               
               eye (0.341006)
               

               
               fco (0.314416)
               

               
               eje (0.296501)
               

               
               hyp (0.285673)
               

               
               lnt (0.284616)
               

               
               fce (0.271592)
               

               
               ebs (0.236602)
               

               
               jca (0.22792)
               

               
               nbm (0.198649)
               

               
               ton (0.1755)
               

               
               rec (0.17307)
               

               
               mcp (0.170648)
               

               
               ski (0.146735)
               

               
               spl (0.143184)
               

               
               pty (0.142714)
               

               
               nca (0.136874)
               

               
               ret (0.128733)
               

               
               eep (0.122564)
               

               
               eru (0.120048)
               

               
               clu (0.119646)
               

               
               med (0.116252)
               

               
               cbl (0.114797)

Expressed library(ies): 30 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


               
               fat (0.884564)
               

               
               ece (0.687916)
               

               
               fcc (0.593354)
               

               
               spc (0.566829)
               

               
               fty (0.527519)
               

               
               fhi (0.508733)
               

               
               ecc (0.46014)
               

               
               fbs (0.350693)
               

               
               eye (0.341006)
               

               
               fco (0.314416)
               

               
               eje (0.296501)
               

               
               hyp (0.285673)
               

               
               lnt (0.284616)
               

               
               fce (0.271592)
               

               
               ebs (0.236602)
               

               
               jca (0.22792)
               

               
               nbm (0.198649)
               

               
               ton (0.1755)
               

               
               rec (0.17307)
               

               
               mcp (0.170648)
               

               
               ski (0.146735)
               

               
               spl (0.143184)
               

               
               pty (0.142714)
               

               
               nca (0.136874)
               

               
               ret (0.128733)
               

               
               eep (0.122564)
               

               
               eru (0.120048)
               

               
               clu (0.119646)
               

               
               med (0.116252)
               

               
               cbl (0.114797)

	234-382, - strand, RNAz p=0.999975
	1423-1541, + strand, RNAz p=0.905069

	234-382, DB810323 full-length enriched swine cDNA library, adult liver Sus (dbj\|DB810323.1\|), blast E-value=0, identity=97.99%
	234-382, DB813935 full-length enriched swine cDNA library, adult ovary Sus (dbj\|DB813935.1\|), blast E-value=0, identity=96.64%
	234-382, DB818831 full-length enriched swine cDNA library, adult thymus Sus (dbj\|DB818831.1\|), blast E-value=0, identity=97.32%
	243-366, CHESTM041 Goat mammary gland Capra hircus cDNA, mRNA sequence (emb\|X73744.1\|), blast E-value=7e-22, identity=86.29%
	265-382, PADT0811015_H21F porcine adipose tissue cDNA library (PADT) Sus (gb\|EB417511.1\|), blast E-value=0, identity=100%
	243-373, LB02952.CR_L21 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE355439.1\|), blast E-value=3e-21, identity=85.5%

	154-1770, gnl\|bosTau2\|chr29 (34947343-34945732)
	154-1770, gnl\|Mm7\|chr19 (7247247-7245773)

	fat (0.884564)
	ece (0.687916)
	fcc (0.593354)
	spc (0.566829)
	fty (0.527519)
	fhi (0.508733)
	ecc (0.46014)
	fbs (0.350693)
	eye (0.341006)
	fco (0.314416)
	eje (0.296501)
	hyp (0.285673)
	lnt (0.284616)
	fce (0.271592)
	ebs (0.236602)
	jca (0.22792)
	nbm (0.198649)
	ton (0.1755)
	rec (0.17307)
	mcp (0.170648)
	ski (0.146735)
	spl (0.143184)
	pty (0.142714)
	nca (0.136874)
	ret (0.128733)
	eep (0.122564)
	eru (0.120048)
	clu (0.119646)
	med (0.116252)
	cbl (0.114797)