Non-Coding RNA Search

Ss1.1-Bra1-PBL_22_B05.5

Sequence:


               
               CAGAAAGAAGAGGAGAGGTGACTTAGAGAACCTCAGTCTCTCCACTGGGAATTGGAATAG
CCTCTAATTTTAGCCATAGAAGGTTTTGCTTTCAATAGTCTATGTTGGGATTTTGCAAAA
ATCCTATTCTCATGAATCTCAAAATAAGGTTGGTGGGAGGAGTGAGTGATGTGACTGACT
CTACTCCTTAGTTGCCCAGAATTATCATCATCTTTTGAAGGGGTTATAGGGAAGTCATTT
CCGTCCTTACCAGCACCCCCACCCCCACCCCAATACCTCCTCCTTTTAGTTTAGTGTGGA
TTAGCAGGTTGGGCTAGAGGAATCAGCTGCTATGCGGTTGATTATTATTTTTTAACCCTT
TCCCTTATTGGTCGTGTACTCCTCCCTTTAATCTAAATGCTCTGTTCAATGCAACTGGAA
ATCTTTATCCTCTTCTCTCCCCCTTCCCTTATATATTGAGGCTATGGGGTAGGAGAAAAG
TGCACAACCCACCACCCCATCCCTTTCCCCTGTGCGCTGAAATTCCTTATTTACACCCCA
CCCCCCACCCCGCACATTTCTTCCCACTCCTTTTCTGGCAAAAAGGAGCCTTTTCTTCTC
TGTGACCTAAGAGCATACTGCACAGGGGAAATTGCCCCCATCTGGACCTGGCTCCACTCT
TGGTTTCTCTTGTCTTCTGCTGCTCTTTTCCTGGTGCTCTTTTTCACGGTGGGGTGTGGG
TAATAGAACAGCCATGGGCTTTTGGGGACCTATAACTTTTTTTTTTTTCCTTTTCATTTA
TAAAAACACTAAACATTCAATTCCAGAGAACCAAAAATCCCACCTTCCCACCGAACACTA
CTAAGGGGCGTGTCTTCTGCTCCATACATTTTCTGTTTTTCTTTCTCTCTTGTTAATGCT
TTTAAAAACAAATGAGTTTTTTTATATAAATAAAGTTTTTAAAGTGTGAAAAAAAAAAAA
CTGTGTCATTTCTTCACTTTAAGCTGTATCTCTTTTCTCCTTTTCATCTGGGTTACTTCC
TCATGTATCCGCGTTCTTTTTTCTCCAGAGCAACCAGAAGGGGGTTGTACCAAGATGGGT
TTATTTTGAGCTCAATCCCAACTTTTAACAAGGAACATTCTTTTTCTAATTATATATGAA
ACATTTTTCTCT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CAGAAAGAAGAGGAGAGGTGACTTAGAGAACCTCAGTCTCTCCACTGGGAATTGGAATAG
CCTCTAATTTTAGCCATAGAAGGTTTTGCTTTCAATAGTCTATGTTGGGATTTTGCAAAA
ATCCTATTCTCATGAATCTCAAAATAAGGTTGGTGGGAGGAGTGAGTGATGTGACTGACT
CTACTCCTTAGTTGCCCAGAATTATCATCATCTTTTGAAGGGGTTATAGGGAAGTCATTT
CCGTCCTTACCAGCACCCCCACCCCCACCCCAATACCTCCTCCTTTTAGTTTAGTGTGGA
TTAGCAGGTTGGGCTAGAGGAATCAGCTGCTATGCGGTTGATTATTATTTTTTAACCCTT
TCCCTTATTGGTCGTGTACTCCTCCCTTTAATCTAAATGCTCTGTTCAATGCAACTGGAA
ATCTTTATCCTCTTCTCTCCCCCTTCCCTTATATATTGAGGCTATGGGGTAGGAGAAAAG
TGCACAACCCACCACCCCATCCCTTTCCCCTGTGCGCTGAAATTCCTTATTTACACCCCA
CCCCCCACCCCGCACATTTCTTCCCACTCCTTTTCTGGCAAAAAGGAGCCTTTTCTTCTC
TGTGACCTAAGAGCATACTGCACAGGGGAAATTGCCCCCATCTGGACCTGGCTCCACTCT
TGGTTTCTCTTGTCTTCTGCTGCTCTTTTCCTGGTGCTCTTTTTCACGGTGGGGTGTGGG
TAATAGAACAGCCATGGGCTTTTGGGGACCTATAACTTTTTTTTTTTTCCTTTTCATTTA
TAAAAACACTAAACATTCAATTCCAGAGAACCAAAAATCCCACCTTCCCACCGAACACTA
CTAAGGGGCGTGTCTTCTGCTCCATACATTTTCTGTTTTTCTTTCTCTCTTGTTAATGCT
TTTAAAAACAAATGAGTTTTTTTATATAAATAAAGTTTTTAAAGTGTGAAAAAAAAAAAA
CTGTGTCATTTCTTCACTTTAAGCTGTATCTCTTTTCTCCTTTTCATCTGGGTTACTTCC
TCATGTATCCGCGTTCTTTTTTCTCCAGAGCAACCAGAAGGGGGTTGTACCAAGATGGGT
TTATTTTGAGCTCAATCCCAACTTTTAACAAGGAACATTCTTTTTCTAATTATATATGAA
ACATTTTTCTCT

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

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

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               383-646, - strand, RNAz p=0.999992

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


               
               383-646, - strand, RNAz p=0.999992

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               383-509, hb03g08.g1 Canis cDNAs from testes cells Canis familiaris cDNA 
(gb|BM539020.1|), blast E-value=4e-34, identity=91.41% 
               

               
               383-646, DG12-1g15 DG12-lung Canis familiaris cDNA 3', mRNA sequence 
(gb|CO654420.1|), blast E-value=8e-20, identity=91.01% 
               

               
               383-646, DG14-144o14 DG14-muscle Canis familiaris cDNA 3', mRNA sequence 
(gb|CO710178.1|), blast E-value=3e-22, identity=92.13% 
               

               
               383-523, UMC-pd10en3-003-c02 Endometrium gilt D10 of estrous cycle pd10en 
(gb|CO986498.1|), blast E-value=0, identity=97.87% 
               

               
               383-646, nac34f03.y1 Dog eye lens. Unnormalized (nac) Canis familiaris cDNA 
(gb|DN868544.1|), blast E-value=3e-22, identity=92.13% 
               

               
               383-509, nad16e12.y1 Dog eye cornea. Unnormalized (nad) Canis familiaris 
(gb|DN871936.1|), blast E-value=4e-34, identity=91.41%

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


               
               383-509, hb03g08.g1 Canis cDNAs from testes cells Canis familiaris cDNA 
(gb|BM539020.1|), blast E-value=4e-34, identity=91.41% 
               

               
               383-646, DG12-1g15 DG12-lung Canis familiaris cDNA 3', mRNA sequence 
(gb|CO654420.1|), blast E-value=8e-20, identity=91.01% 
               

               
               383-646, DG14-144o14 DG14-muscle Canis familiaris cDNA 3', mRNA sequence 
(gb|CO710178.1|), blast E-value=3e-22, identity=92.13% 
               

               
               383-523, UMC-pd10en3-003-c02 Endometrium gilt D10 of estrous cycle pd10en 
(gb|CO986498.1|), blast E-value=0, identity=97.87% 
               

               
               383-646, nac34f03.y1 Dog eye lens. Unnormalized (nac) Canis familiaris cDNA 
(gb|DN868544.1|), blast E-value=3e-22, identity=92.13% 
               

               
               383-509, nad16e12.y1 Dog eye cornea. Unnormalized (nad) Canis familiaris 
(gb|DN871936.1|), blast E-value=4e-34, identity=91.41%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               188-1149, gnl|bosTau2|chr15 (50929762-50930700)
               

               
               188-1149, gnl|Hg17|chr11 (57341702-57342686)
               

               
               188-1149, gnl|Mm7|chr2 (84445269-84444311)

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


               
               188-1149, gnl|bosTau2|chr15 (50929762-50930700)
               

               
               188-1149, gnl|Hg17|chr11 (57341702-57342686)
               

               
               188-1149, gnl|Mm7|chr2 (84445269-84444311)

Expressed library(ies): 15 entry(ies)

More info

Expressed library(ies): 15 entry(ies)

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               fce (0.271592)
               

               
               col (0.195008)
               

               
               mcp (0.170648)
               

               
               fhi (0.169578)
               

               
               csp (0.161186)
               

               
               pty (0.142714)
               

               
               nca (0.136874)
               

               
               pla (0.133672)
               

               
               nmm (0.132802)
               

               
               ese (0.126502)
               

               
               eru (0.120048)
               

               
               ebs (0.118301)
               

               
               jca (0.11396)
               

               
               jej (0.0989218)
               

               
               eje (0.0988338)

Expressed library(ies): 15 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


               
               fce (0.271592)
               

               
               col (0.195008)
               

               
               mcp (0.170648)
               

               
               fhi (0.169578)
               

               
               csp (0.161186)
               

               
               pty (0.142714)
               

               
               nca (0.136874)
               

               
               pla (0.133672)
               

               
               nmm (0.132802)
               

               
               ese (0.126502)
               

               
               eru (0.120048)
               

               
               ebs (0.118301)
               

               
               jca (0.11396)
               

               
               jej (0.0989218)
               

               
               eje (0.0988338)

	383-509, hb03g08.g1 Canis cDNAs from testes cells Canis familiaris cDNA (gb\|BM539020.1\|), blast E-value=4e-34, identity=91.41%
	383-646, DG12-1g15 DG12-lung Canis familiaris cDNA 3', mRNA sequence (gb\|CO654420.1\|), blast E-value=8e-20, identity=91.01%
	383-646, DG14-144o14 DG14-muscle Canis familiaris cDNA 3', mRNA sequence (gb\|CO710178.1\|), blast E-value=3e-22, identity=92.13%
	383-523, UMC-pd10en3-003-c02 Endometrium gilt D10 of estrous cycle pd10en (gb\|CO986498.1\|), blast E-value=0, identity=97.87%
	383-646, nac34f03.y1 Dog eye lens. Unnormalized (nac) Canis familiaris cDNA (gb\|DN868544.1\|), blast E-value=3e-22, identity=92.13%
	383-509, nad16e12.y1 Dog eye cornea. Unnormalized (nad) Canis familiaris (gb\|DN871936.1\|), blast E-value=4e-34, identity=91.41%

	188-1149, gnl\|bosTau2\|chr15 (50929762-50930700)
	188-1149, gnl\|Hg17\|chr11 (57341702-57342686)
	188-1149, gnl\|Mm7\|chr2 (84445269-84444311)

	fce (0.271592)
	col (0.195008)
	mcp (0.170648)
	fhi (0.169578)
	csp (0.161186)
	pty (0.142714)
	nca (0.136874)
	pla (0.133672)
	nmm (0.132802)
	ese (0.126502)
	eru (0.120048)
	ebs (0.118301)
	jca (0.11396)
	jej (0.0989218)
	eje (0.0988338)