Non-Coding RNA Search

Ss1.1-rret01_j23.5

Sequence:


               
               TAGAAAATATTGATGATGGTTGAAATTGTTAGAAGAAGTATGTATGTCTAGATGTTACTA
TCGTGTGTATGTATTCTCGACAAGCAGTATAATACACCTGTGATTTTTTTTTTCTTTACA
TTAGGGATAATGCTTAAGAAATTAATCTTCATATATATTATCATCCCTAATGTAGGAGGG
AAAAGTACTTAACTGCCCATGATATGTATTTTACTTATACTATACCAGAGGGGGAACTGT
AAAGTAACTACACGTGTATTCTTGGGTTTTTCACATATATAAGTATTCATTTTGAGTAGT
TGTAAGAAAAAAAATCTTTAAATGAAATTTAATTCCTGATGGGATAGTATTATAAAAGCC
AGTATTTTAAAAATAAGAAAGGATAGGGCCATTGTTGAGTTTTCTTCCTTTCTGCTATTG
TTAGCATTCAAAATTAAAGTGTCACTTTGGTACCTCTTGTCTTAACATTTACTGAGACCA
GTTACTATTGAGATGATTAACACAGGTTGGCAGTAGCAAACTGTAGAGGCATTTTGAGCA
ATTCCTTCAGAGGAAGACAGTATAACTATCTCATTCAATCTTTGGCGATCCTGTATAGTA
GGTATTATCATCATCTCCATTTTTCAGATAAGGAGAGAGGGGGGTTAGCAAGGTTAAGAG
AGTTACCCAATTCACACAGCAAGTTAGTGGTTGAGCCAGACCATGAGTCTTGTGACTCTG
TTCTTTTCACTATGCAATATGCAAACAATAAAATGTTATACAAATGAAAAAAAAAAAAAA
GTCCTTTAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TAGAAAATATTGATGATGGTTGAAATTGTTAGAAGAAGTATGTATGTCTAGATGTTACTA
TCGTGTGTATGTATTCTCGACAAGCAGTATAATACACCTGTGATTTTTTTTTTCTTTACA
TTAGGGATAATGCTTAAGAAATTAATCTTCATATATATTATCATCCCTAATGTAGGAGGG
AAAAGTACTTAACTGCCCATGATATGTATTTTACTTATACTATACCAGAGGGGGAACTGT
AAAGTAACTACACGTGTATTCTTGGGTTTTTCACATATATAAGTATTCATTTTGAGTAGT
TGTAAGAAAAAAAATCTTTAAATGAAATTTAATTCCTGATGGGATAGTATTATAAAAGCC
AGTATTTTAAAAATAAGAAAGGATAGGGCCATTGTTGAGTTTTCTTCCTTTCTGCTATTG
TTAGCATTCAAAATTAAAGTGTCACTTTGGTACCTCTTGTCTTAACATTTACTGAGACCA
GTTACTATTGAGATGATTAACACAGGTTGGCAGTAGCAAACTGTAGAGGCATTTTGAGCA
ATTCCTTCAGAGGAAGACAGTATAACTATCTCATTCAATCTTTGGCGATCCTGTATAGTA
GGTATTATCATCATCTCCATTTTTCAGATAAGGAGAGAGGGGGGTTAGCAAGGTTAAGAG
AGTTACCCAATTCACACAGCAAGTTAGTGGTTGAGCCAGACCATGAGTCTTGTGACTCTG
TTCTTTTCACTATGCAATATGCAAACAATAAAATGTTATACAAATGAAAAAAAAAAAAAA
GTCCTTTAAAAA

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

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

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               79-238, - strand, RNAz p=0.988403
               

               
               408-523, + strand, RNAz p=0.999021

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


               
               79-238, - strand, RNAz p=0.988403
               

               
               408-523, + strand, RNAz p=0.999021

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               105-188, + strand, RNAmicro p=0.999963

Predicted microRNA(s): 1 entry(ies)

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PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               105-188, + strand, RNAmicro p=0.999963

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               114-230, BP421523 Homo sapiens small intestine Homo sapiens cDNA clone 
(dbj|BP421523.1|), blast E-value=4e-39, identity=93.16% 
               

               
               114-230, BP423077 Homo sapiens small intestine Homo sapiens cDNA clone 
(dbj|BP423077.1|), blast E-value=4e-39, identity=93.16% 
               

               
               114-230, DB352329 UTERU3 Homo sapiens cDNA clone UTERU3004522 3', mRNA 
(dbj|DB352329.1|), blast E-value=4e-39, identity=93.16% 
               

               
               114-238, POSM0100003_B01 porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|BM190024.1|), blast E-value=0, identity=96.88% 
               

               
               114-230, UI-1-BB1p-atn-a-08-0-UI.s1 NCI_CGAP_Pl6 Homo sapiens cDNA clone 
(gb|BU754037.1|), blast E-value=4e-39, identity=93.16% 
               

               
               114-230, UI-H-EZ0-baw-c-23-0-UI.s1 NCI_CGAP_Ch1 Homo sapiens cDNA clone 
(gb|CA415092.1|), blast E-value=4e-39, identity=93.16%

Similar Transcript(s): 6 entry(ies)

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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


               
               114-230, BP421523 Homo sapiens small intestine Homo sapiens cDNA clone 
(dbj|BP421523.1|), blast E-value=4e-39, identity=93.16% 
               

               
               114-230, BP423077 Homo sapiens small intestine Homo sapiens cDNA clone 
(dbj|BP423077.1|), blast E-value=4e-39, identity=93.16% 
               

               
               114-230, DB352329 UTERU3 Homo sapiens cDNA clone UTERU3004522 3', mRNA 
(dbj|DB352329.1|), blast E-value=4e-39, identity=93.16% 
               

               
               114-238, POSM0100003_B01 porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|BM190024.1|), blast E-value=0, identity=96.88% 
               

               
               114-230, UI-1-BB1p-atn-a-08-0-UI.s1 NCI_CGAP_Pl6 Homo sapiens cDNA clone 
(gb|BU754037.1|), blast E-value=4e-39, identity=93.16% 
               

               
               114-230, UI-H-EZ0-baw-c-23-0-UI.s1 NCI_CGAP_Ch1 Homo sapiens cDNA clone 
(gb|CA415092.1|), blast E-value=4e-39, identity=93.16%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_198794, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_198794, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               2-792, gnl|bosTau2|chr10 (28817153-28816359)
               

               
               2-792, gnl|Hg17|chr14 (49955756-49954964)
               

               
               2-792, gnl|Mm7|chr12 (67745517-67744725)

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


               
               2-792, gnl|bosTau2|chr10 (28817153-28816359)
               

               
               2-792, gnl|Hg17|chr14 (49955756-49954964)
               

               
               2-792, gnl|Mm7|chr12 (67745517-67744725)

Expressed library(ies): 11 entry(ies)

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Expressed library(ies): 11 entry(ies)

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               fco (0.314416)
               

               
               spc (0.226732)
               

               
               fcc (0.197785)
               

               
               rec (0.17307)
               

               
               nco (0.161734)
               

               
               fat (0.147427)
               

               
               csk (0.140746)
               

               
               lyg (0.133103)
               

               
               ova (0.129132)
               

               
               ret (0.128733)
               

               
               jca (0.11396)

Expressed library(ies): 11 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


               
               fco (0.314416)
               

               
               spc (0.226732)
               

               
               fcc (0.197785)
               

               
               rec (0.17307)
               

               
               nco (0.161734)
               

               
               fat (0.147427)
               

               
               csk (0.140746)
               

               
               lyg (0.133103)
               

               
               ova (0.129132)
               

               
               ret (0.128733)
               

               
               jca (0.11396)

	79-238, - strand, RNAz p=0.988403
	408-523, + strand, RNAz p=0.999021

	114-230, BP421523 Homo sapiens small intestine Homo sapiens cDNA clone (dbj\|BP421523.1\|), blast E-value=4e-39, identity=93.16%
	114-230, BP423077 Homo sapiens small intestine Homo sapiens cDNA clone (dbj\|BP423077.1\|), blast E-value=4e-39, identity=93.16%
	114-230, DB352329 UTERU3 Homo sapiens cDNA clone UTERU3004522 3', mRNA (dbj\|DB352329.1\|), blast E-value=4e-39, identity=93.16%
	114-238, POSM0100003_B01 porcine skeletal muscle cDNA library (PoSM) Sus (gb\|BM190024.1\|), blast E-value=0, identity=96.88%
	114-230, UI-1-BB1p-atn-a-08-0-UI.s1 NCI_CGAP_Pl6 Homo sapiens cDNA clone (gb\|BU754037.1\|), blast E-value=4e-39, identity=93.16%
	114-230, UI-H-EZ0-baw-c-23-0-UI.s1 NCI_CGAP_Ch1 Homo sapiens cDNA clone (gb\|CA415092.1\|), blast E-value=4e-39, identity=93.16%

	2-792, gnl\|bosTau2\|chr10 (28817153-28816359)
	2-792, gnl\|Hg17\|chr14 (49955756-49954964)
	2-792, gnl\|Mm7\|chr12 (67745517-67744725)

	fco (0.314416)
	spc (0.226732)
	fcc (0.197785)
	rec (0.17307)
	nco (0.161734)
	fat (0.147427)
	csk (0.140746)
	lyg (0.133103)
	ova (0.129132)
	ret (0.128733)
	jca (0.11396)