Non-Coding RNA Search

Ss1.1-Pig4-TMW8047B09.3

Sequence:


               
               CATGAACGGAACACTAGCCCACTGGTTGCTCTCAGACACACCAAGTTTTGATTTTGAATG
TCAACCTTATTGAAGATCTAACCTAAGAGTAAGCTAATCACAGGGATTCTTTTTTAGAGC
ACTTTTTATGCAGATGAAGCTATTTTTTCCAGCACATAGATTCTTCCAGGTTTTCCAACG
AGTAATTTCCCCGAATTGGCATACCGCAGTGTGGACAGCTGACTCTTCATCCAGCTGCTG
GCTTGTGGGTGTGGAGCTTTTCTTTATATATATTTATATATATATATATATATATACACA
TATGAGTCTGGCTGGGCTGGTATTTTGTTTGATCTTCCTGGAAATGAGCAACGGTGACAG
CTCACATAACTGGTTTTTTTTGGGGTTTTTTTTGTTGTTTGTTTTTTGTTTTAATCTGGG
CTGATGGATACTTACTAAAGAATTCATTTCATTTTGCTGAGGGGAAAATGCACTTTTCTT
TTGGCAGTTCCATATCCAGCCACTTGGTTTGCTGGATTTGGGAAAACTCCTTTTTTGGCC
CTGCTGTGTGCTTAGCCATAACAATTCCATTAAGCAAGAAGGTAAACAAAAGACAAAAAA
AAAAAAAATCTTGCACTGGCTTGTCTCACTTACGAAACACCGTGAAGTGGTTTGATTGGG
TGGGGCTGGGTGCCATGTATGTCCATGCCTGTAATTTTCATAATAAGCAAAGTACATAAA
GAATTACATTCTGTTCAGGTGATAACTGAGCCTCAATCAAGCAGAAACTTTTTGCTTGAC
ATTAAAAAAAATTTCTATTAGTGAAATTTCTTTTTTTTTTTTTGAAGCACCCTGTTATCT
AAAGAATCTTTGTAAGATTTTTGTAAAATTTTGTTTTACAAGATTTTATTTGAAATTGTT
TTTTGCAAGATTGTTATATTTCTGTATGAATGTATTTTTTATTGGAATAACATAAAAGAA
AATTCTTATCAG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CATGAACGGAACACTAGCCCACTGGTTGCTCTCAGACACACCAAGTTTTGATTTTGAATG
TCAACCTTATTGAAGATCTAACCTAAGAGTAAGCTAATCACAGGGATTCTTTTTTAGAGC
ACTTTTTATGCAGATGAAGCTATTTTTTCCAGCACATAGATTCTTCCAGGTTTTCCAACG
AGTAATTTCCCCGAATTGGCATACCGCAGTGTGGACAGCTGACTCTTCATCCAGCTGCTG
GCTTGTGGGTGTGGAGCTTTTCTTTATATATATTTATATATATATATATATATATACACA
TATGAGTCTGGCTGGGCTGGTATTTTGTTTGATCTTCCTGGAAATGAGCAACGGTGACAG
CTCACATAACTGGTTTTTTTTGGGGTTTTTTTTGTTGTTTGTTTTTTGTTTTAATCTGGG
CTGATGGATACTTACTAAAGAATTCATTTCATTTTGCTGAGGGGAAAATGCACTTTTCTT
TTGGCAGTTCCATATCCAGCCACTTGGTTTGCTGGATTTGGGAAAACTCCTTTTTTGGCC
CTGCTGTGTGCTTAGCCATAACAATTCCATTAAGCAAGAAGGTAAACAAAAGACAAAAAA
AAAAAAAATCTTGCACTGGCTTGTCTCACTTACGAAACACCGTGAAGTGGTTTGATTGGG
TGGGGCTGGGTGCCATGTATGTCCATGCCTGTAATTTTCATAATAAGCAAAGTACATAAA
GAATTACATTCTGTTCAGGTGATAACTGAGCCTCAATCAAGCAGAAACTTTTTGCTTGAC
ATTAAAAAAAATTTCTATTAGTGAAATTTCTTTTTTTTTTTTTGAAGCACCCTGTTATCT
AAAGAATCTTTGTAAGATTTTTGTAAAATTTTGTTTTACAAGATTTTATTTGAAATTGTT
TTTTGCAAGATTGTTATATTTCTGTATGAATGTATTTTTTATTGGAATAACATAAAAGAA
AATTCTTATCAG

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

More info

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

Help | Less info


               
               459-569, - strand, RNAz p=0.732257
               

               
               719-830, + strand, RNAz p=0.959667

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


               
               459-569, - strand, RNAz p=0.732257
               

               
               719-830, + strand, RNAz p=0.959667

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               719-810, AJ536905 Canis familiaris MDCK Canis familiaris cDNA clone 
(emb|AJ536905.1|), blast E-value=3e-29, identity=91.3% 
               

               
               719-810, UMC-pd3end1-002-b05 Endometrium gilt D3 of estrous cycle pd3end Sus 
(gb|CO988031.1|), blast E-value=3e-29, identity=91.3% 
               

               
               719-783, CT02041A2G01 Equine Articular Cartilage cDNA Library Equus caballus 
(gb|CX605429.1|), blast E-value=2e-27, identity=100% 
               

               
               719-810, LIB4007-033-Q1-K1-F8 LIB4007 Canis familiaris cDNA clone 
(gb|DN410679.1|), blast E-value=3e-29, identity=91.3% 
               

               
               719-783, HL01014B1A04 Equine lymphocyte cDNA Library Equus caballus cDNA 
(gb|DN505191.1|), blast E-value=2e-27, identity=100% 
               

               
               719-783, HL02016B2C12 Equine placenta cDNA Library Equus caballus cDNA clone 
(gb|DN509674.1|), blast E-value=2e-27, identity=100%

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


               
               719-810, AJ536905 Canis familiaris MDCK Canis familiaris cDNA clone 
(emb|AJ536905.1|), blast E-value=3e-29, identity=91.3% 
               

               
               719-810, UMC-pd3end1-002-b05 Endometrium gilt D3 of estrous cycle pd3end Sus 
(gb|CO988031.1|), blast E-value=3e-29, identity=91.3% 
               

               
               719-783, CT02041A2G01 Equine Articular Cartilage cDNA Library Equus caballus 
(gb|CX605429.1|), blast E-value=2e-27, identity=100% 
               

               
               719-810, LIB4007-033-Q1-K1-F8 LIB4007 Canis familiaris cDNA clone 
(gb|DN410679.1|), blast E-value=3e-29, identity=91.3% 
               

               
               719-783, HL01014B1A04 Equine lymphocyte cDNA Library Equus caballus cDNA 
(gb|DN505191.1|), blast E-value=2e-27, identity=100% 
               

               
               719-783, HL02016B2C12 Equine placenta cDNA Library Equus caballus cDNA clone 
(gb|DN509674.1|), blast E-value=2e-27, identity=100%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-972, gnl|bosTau2|chr13 (29620534-29619557)
               

               
               1-972, gnl|Hg17|chr10 (3809688-3808747)
               

               
               1-972, gnl|Mm7|chr13 (5754479-5755405)

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


               
               1-972, gnl|bosTau2|chr13 (29620534-29619557)
               

               
               1-972, gnl|Hg17|chr10 (3809688-3808747)
               

               
               1-972, gnl|Mm7|chr13 (5754479-5755405)

Expressed library(ies): 20 entry(ies)

More info

Expressed library(ies): 20 entry(ies)

Help | Less info


               
               fat (0.442282)
               

               
               pla (0.401016)
               

               
               jej (0.395687)
               

               
               elu (0.385356)
               

               
               rec (0.346141)
               

               
               cut (0.339847)
               

               
               mga (0.32041)
               

               
               csk (0.281492)
               

               
               cbe (0.239234)
               

               
               fcc (0.197785)
               

               
               aor (0.195274)
               

               
               gul (0.177588)
               

               
               ill (0.175593)
               

               
               eye (0.170503)
               

               
               tbr (0.154178)
               

               
               sug (0.127291)
               

               
               tra (0.123092)
               

               
               spc (0.113366)
               

               
               nbm (0.0993246)
               

               
               eje (0.0988338)

Expressed library(ies): 20 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 (0.442282)
               

               
               pla (0.401016)
               

               
               jej (0.395687)
               

               
               elu (0.385356)
               

               
               rec (0.346141)
               

               
               cut (0.339847)
               

               
               mga (0.32041)
               

               
               csk (0.281492)
               

               
               cbe (0.239234)
               

               
               fcc (0.197785)
               

               
               aor (0.195274)
               

               
               gul (0.177588)
               

               
               ill (0.175593)
               

               
               eye (0.170503)
               

               
               tbr (0.154178)
               

               
               sug (0.127291)
               

               
               tra (0.123092)
               

               
               spc (0.113366)
               

               
               nbm (0.0993246)
               

               
               eje (0.0988338)

	459-569, - strand, RNAz p=0.732257
	719-830, + strand, RNAz p=0.959667

	719-810, AJ536905 Canis familiaris MDCK Canis familiaris cDNA clone (emb\|AJ536905.1\|), blast E-value=3e-29, identity=91.3%
	719-810, UMC-pd3end1-002-b05 Endometrium gilt D3 of estrous cycle pd3end Sus (gb\|CO988031.1\|), blast E-value=3e-29, identity=91.3%
	719-783, CT02041A2G01 Equine Articular Cartilage cDNA Library Equus caballus (gb\|CX605429.1\|), blast E-value=2e-27, identity=100%
	719-810, LIB4007-033-Q1-K1-F8 LIB4007 Canis familiaris cDNA clone (gb\|DN410679.1\|), blast E-value=3e-29, identity=91.3%
	719-783, HL01014B1A04 Equine lymphocyte cDNA Library Equus caballus cDNA (gb\|DN505191.1\|), blast E-value=2e-27, identity=100%
	719-783, HL02016B2C12 Equine placenta cDNA Library Equus caballus cDNA clone (gb\|DN509674.1\|), blast E-value=2e-27, identity=100%

	1-972, gnl\|bosTau2\|chr13 (29620534-29619557)
	1-972, gnl\|Hg17\|chr10 (3809688-3808747)
	1-972, gnl\|Mm7\|chr13 (5754479-5755405)

	fat (0.442282)
	pla (0.401016)
	jej (0.395687)
	elu (0.385356)
	rec (0.346141)
	cut (0.339847)
	mga (0.32041)
	csk (0.281492)
	cbe (0.239234)
	fcc (0.197785)
	aor (0.195274)
	gul (0.177588)
	ill (0.175593)
	eye (0.170503)
	tbr (0.154178)
	sug (0.127291)
	tra (0.123092)
	spc (0.113366)
	nbm (0.0993246)
	eje (0.0988338)