Non-Coding RNA Search

Ss1.1-Pig4-TMW8022E03.3

Sequence:


               
               AAAAAAAAAACAAACAGCATTTTCTGTGCTCAAGTGTCTTTACAACATAAAGAAAACGTA
AAAGACAGGGAGGGAAATGAGAAATTTTGAATCATGTTCAGGACTGCTCTTCCCAAAACT
TTCTATGGAAATCCCTCCAACTGGACTAATAAGAAAAAGTTCTTGGCAAAAAGAACTGGT
TTTTGAGCAAGATTTGTAGTAATAATCTCTTTAAGAATTATGCTTGTTGTTTCAAAATCC
CAATTAGGAAAACATGGAGTATATCTTAAAATTGTTTGCGTCAACGAAACTGTAGAATGA
AATTTAGCATTTTATACCACAACAGAAGTTCTGTTTGGAAATCCCACTTTTATTCTATTG
TGATCATTTTTTTTAATCTTAATAATCCTGCCTTCTATAATACCAAATGTCATTATTAAT
GCGGGACTTTTAAAATTGCATTTATTGCATGAGACTGTTTTTAATAGCATGAGAATGTTC
TATTTGGAATTGTATCATGGTCAATCTAAATGGAAAAGCAAAATTTCTTTGAAAACTTAA
ACACTGATGTATTGATCACTATCAAACATGTTATTTATTAATAATTGTGTAGGGGTCTGA
GTAGAAGAAATTGAGTTGTCTTGTATGGGGTGAGGTGGGGACATACAGTGGACACACAAA
GTCAGTGGAGCAGCCACTGCTCTGGCACCAGGACTGTAATGACCTCATGTTTTGTGTGTT
TTAAAAAAAAAGACTTGAAAAGCTGCATGACTTTAAAACGATTCTTCATTTGTTAAACAT
ACTTCTCCTCAGAAAATTTTTGCCACTTTGAACATTTAAAATATAACAGTAGAGAAAGAA
AAATACATCACTAGATTTGGGAGTGTGTTTCTGTCAGCAGTGTTGGTCATTTTGGTGCCA
GGTTGATGGACAGCTTCATTGGGCAGCACTGTTGCTTCTTGACTGGGTAAATCATTTTTG
GTACCCAGGCTGCCACTTTTAATGATTACAGACTGTTTACTGTCATTGTTCCTAGCAGAG
GAAGCTTTCATTATAGGAGTTTAAGTCTTCCCATGAGCATAAATGAATTTAGGACACTTG
AACCAAAACTTGAGCATAGTGAGGTTTCAGAACTCACAGACCTGGTTCAGAAAAATTCGT
ATCACCTTTCCCAAGGTAAAACTTTTCAGATATGTTTAAATATTAAATAATTCCTGCATT
TATTAGCTCTAAGATGCAGGTAACTCTCCTTCCACTTGGGGGATGGTTCAGGGAGGTGGG
AGCATTATCTCCCATTTTTCTGGTGACTTCTTAGAACATAGAATTCACCGTTTTATCCTT
AAGTCCTCAAAGGGTTATGGTGGAGTAGGACTTACTTAATGCAAAATAGTCTTCTATTTT
TAATAGGAACTTAGAAAATACTTAACTTTGAATTACCTAGAGTTGTTTCCTTTAGAAACC
AGAGCTATTTATTTGTATTTAAAACAATGTTTATTATTTGTACCAATTCTTATTCCTCTG
TGTGAATAAACGCAAGACCGTGTCAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AAAAAAAAAACAAACAGCATTTTCTGTGCTCAAGTGTCTTTACAACATAAAGAAAACGTA
AAAGACAGGGAGGGAAATGAGAAATTTTGAATCATGTTCAGGACTGCTCTTCCCAAAACT
TTCTATGGAAATCCCTCCAACTGGACTAATAAGAAAAAGTTCTTGGCAAAAAGAACTGGT
TTTTGAGCAAGATTTGTAGTAATAATCTCTTTAAGAATTATGCTTGTTGTTTCAAAATCC
CAATTAGGAAAACATGGAGTATATCTTAAAATTGTTTGCGTCAACGAAACTGTAGAATGA
AATTTAGCATTTTATACCACAACAGAAGTTCTGTTTGGAAATCCCACTTTTATTCTATTG
TGATCATTTTTTTTAATCTTAATAATCCTGCCTTCTATAATACCAAATGTCATTATTAAT
GCGGGACTTTTAAAATTGCATTTATTGCATGAGACTGTTTTTAATAGCATGAGAATGTTC
TATTTGGAATTGTATCATGGTCAATCTAAATGGAAAAGCAAAATTTCTTTGAAAACTTAA
ACACTGATGTATTGATCACTATCAAACATGTTATTTATTAATAATTGTGTAGGGGTCTGA
GTAGAAGAAATTGAGTTGTCTTGTATGGGGTGAGGTGGGGACATACAGTGGACACACAAA
GTCAGTGGAGCAGCCACTGCTCTGGCACCAGGACTGTAATGACCTCATGTTTTGTGTGTT
TTAAAAAAAAAGACTTGAAAAGCTGCATGACTTTAAAACGATTCTTCATTTGTTAAACAT
ACTTCTCCTCAGAAAATTTTTGCCACTTTGAACATTTAAAATATAACAGTAGAGAAAGAA
AAATACATCACTAGATTTGGGAGTGTGTTTCTGTCAGCAGTGTTGGTCATTTTGGTGCCA
GGTTGATGGACAGCTTCATTGGGCAGCACTGTTGCTTCTTGACTGGGTAAATCATTTTTG
GTACCCAGGCTGCCACTTTTAATGATTACAGACTGTTTACTGTCATTGTTCCTAGCAGAG
GAAGCTTTCATTATAGGAGTTTAAGTCTTCCCATGAGCATAAATGAATTTAGGACACTTG
AACCAAAACTTGAGCATAGTGAGGTTTCAGAACTCACAGACCTGGTTCAGAAAAATTCGT
ATCACCTTTCCCAAGGTAAAACTTTTCAGATATGTTTAAATATTAAATAATTCCTGCATT
TATTAGCTCTAAGATGCAGGTAACTCTCCTTCCACTTGGGGGATGGTTCAGGGAGGTGGG
AGCATTATCTCCCATTTTTCTGGTGACTTCTTAGAACATAGAATTCACCGTTTTATCCTT
AAGTCCTCAAAGGGTTATGGTGGAGTAGGACTTACTTAATGCAAAATAGTCTTCTATTTT
TAATAGGAACTTAGAAAATACTTAACTTTGAATTACCTAGAGTTGTTTCCTTTAGAAACC
AGAGCTATTTATTTGTATTTAAAACAATGTTTATTATTTGTACCAATTCTTATTCCTCTG
TGTGAATAAACGCAAGACCGTGTCAAAAAAAAAAAA

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

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

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               1170-1397, + strand, RNAz p=0.999522

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


               
               1170-1397, + strand, RNAz p=0.999522

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               1170-1397, CJ011873 full-length enriched swine cDNA library, adult mesenteric 
(dbj|CJ011873.1|), blast E-value=0, identity=99.56% 
               

               
               1208-1397, DB533878 RIKEN full-length enriched human cDNA library, hippocampus 
(dbj|DB533878.1|), blast E-value=0, identity=90% 
               

               
               1208-1397, DB541547 RIKEN full-length enriched human cDNA library, hippocampus 
(dbj|DB541547.1|), blast E-value=0, identity=90% 
               

               
               1208-1397, DB548282 RIKEN full-length enriched human cDNA library, hippocampus 
(dbj|DB548282.1|), blast E-value=0, identity=90% 
               

               
               1208-1397, BX365120 Homo sapiens PLACENTA COT 25-NORMALIZED Homo sapiens cDNA 
(emb|BX365120.2|), blast E-value=0, identity=90% 
               

               
               1175-1397, CT020021A20F11 Equine Articular Cartilage cDNA Library Equus 
(gb|CX598602.1|), blast E-value=0, identity=89.43%

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


               
               1170-1397, CJ011873 full-length enriched swine cDNA library, adult mesenteric 
(dbj|CJ011873.1|), blast E-value=0, identity=99.56% 
               

               
               1208-1397, DB533878 RIKEN full-length enriched human cDNA library, hippocampus 
(dbj|DB533878.1|), blast E-value=0, identity=90% 
               

               
               1208-1397, DB541547 RIKEN full-length enriched human cDNA library, hippocampus 
(dbj|DB541547.1|), blast E-value=0, identity=90% 
               

               
               1208-1397, DB548282 RIKEN full-length enriched human cDNA library, hippocampus 
(dbj|DB548282.1|), blast E-value=0, identity=90% 
               

               
               1208-1397, BX365120 Homo sapiens PLACENTA COT 25-NORMALIZED Homo sapiens cDNA 
(emb|BX365120.2|), blast E-value=0, identity=90% 
               

               
               1175-1397, CT020021A20F11 Equine Articular Cartilage cDNA Library Equus 
(gb|CX598602.1|), blast E-value=0, identity=89.43%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               4-1524, gnl|bosTau2|chr11 (73894912-73896432)
               

               
               4-1524, gnl|Hg17|chr9 (122083357-122081841)
               

               
               4-1524, gnl|Mm7|chr2 (36124775-36123388)

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


               
               4-1524, gnl|bosTau2|chr11 (73894912-73896432)
               

               
               4-1524, gnl|Hg17|chr9 (122083357-122081841)
               

               
               4-1524, gnl|Mm7|chr2 (36124775-36123388)

Expressed library(ies): 20 entry(ies)

More info

Expressed library(ies): 20 entry(ies)

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               mgp (0.461361)
               

               
               cmu (0.372787)
               

               
               liv (0.292569)
               

               
               spl (0.286369)
               

               
               ece (0.229305)
               

               
               jca (0.22792)
               

               
               mas (0.210305)
               

               
               nep (0.183925)
               

               
               ill (0.175593)
               

               
               rec (0.17307)
               

               
               fhi (0.169578)
               

               
               nco (0.161734)
               

               
               lun (0.150489)
               

               
               csk (0.140746)
               

               
               ste (0.135208)
               

               
               pla (0.133672)
               

               
               thg (0.126791)
               

               
               ebs (0.118301)
               

               
               spc (0.113366)
               

               
               nbm (0.0993246)

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


               
               mgp (0.461361)
               

               
               cmu (0.372787)
               

               
               liv (0.292569)
               

               
               spl (0.286369)
               

               
               ece (0.229305)
               

               
               jca (0.22792)
               

               
               mas (0.210305)
               

               
               nep (0.183925)
               

               
               ill (0.175593)
               

               
               rec (0.17307)
               

               
               fhi (0.169578)
               

               
               nco (0.161734)
               

               
               lun (0.150489)
               

               
               csk (0.140746)
               

               
               ste (0.135208)
               

               
               pla (0.133672)
               

               
               thg (0.126791)
               

               
               ebs (0.118301)
               

               
               spc (0.113366)
               

               
               nbm (0.0993246)

	1170-1397, CJ011873 full-length enriched swine cDNA library, adult mesenteric (dbj\|CJ011873.1\|), blast E-value=0, identity=99.56%
	1208-1397, DB533878 RIKEN full-length enriched human cDNA library, hippocampus (dbj\|DB533878.1\|), blast E-value=0, identity=90%
	1208-1397, DB541547 RIKEN full-length enriched human cDNA library, hippocampus (dbj\|DB541547.1\|), blast E-value=0, identity=90%
	1208-1397, DB548282 RIKEN full-length enriched human cDNA library, hippocampus (dbj\|DB548282.1\|), blast E-value=0, identity=90%
	1208-1397, BX365120 Homo sapiens PLACENTA COT 25-NORMALIZED Homo sapiens cDNA (emb\|BX365120.2\|), blast E-value=0, identity=90%
	1175-1397, CT020021A20F11 Equine Articular Cartilage cDNA Library Equus (gb\|CX598602.1\|), blast E-value=0, identity=89.43%

	4-1524, gnl\|bosTau2\|chr11 (73894912-73896432)
	4-1524, gnl\|Hg17\|chr9 (122083357-122081841)
	4-1524, gnl\|Mm7\|chr2 (36124775-36123388)

	mgp (0.461361)
	cmu (0.372787)
	liv (0.292569)
	spl (0.286369)
	ece (0.229305)
	jca (0.22792)
	mas (0.210305)
	nep (0.183925)
	ill (0.175593)
	rec (0.17307)
	fhi (0.169578)
	nco (0.161734)
	lun (0.150489)
	csk (0.140746)
	ste (0.135208)
	pla (0.133672)
	thg (0.126791)
	ebs (0.118301)
	spc (0.113366)
	nbm (0.0993246)