Non-Coding RNA Search

Ss1.1-ruio02_c18.5

Sequence:


               
               GTTACCAGTGGAGCTTGTCTTCTGAGCTAATCCTATTGTCCTTTTATTGAAGGATGGCTG
TAGACTGCTCTAGCTTGAATATTGCAACATAGCATCTTAGATCTAGATAGGGACGCTAAT
GCCACAGTTGTAGGAGTGTGAAAAAAAGCACCTTGTATGTAGTAATGTATTTTGTATCTT
TGTTTTCTTTACTGACTGTTTATAACACTCAACTGACAATAGCTATGAACTGTATTTTAA
ATCATACTGTTGAATATTTTCCCTCTTTTGTTGGGAAGCGCATTTTAGTTTAACTGTGTC
TGTTTTTGTTGATAGCTTACCTGGAAGGCAGTGACCACTTTTTTATATTCCCTTAATGAA
ACCATTCAGCAGGGATACGCTGTTGAGGCTGGTTATAGAGGTTTTCTATAATAAATGTTC
AAGTATTTTTGTACATAACTGGTTAATTTTAATAAGAGATACCATTATGTGTAAAAAAAA
AAAGTAAAAATAAAAGCAAACAATTGTGGATGCAGTATGATTGTTATAATTATGCCAAAT
ACTTTATGTATGGAAAAAGAATATTTGTACATATGTGCTTTTAACAATAATTCTGCCATA
TTGACTTTACAATTTTGAATGTCAGAAAAAATAATATATGTTAAAATATTTATGTTTAGT
GAAAGTATTCATAATTGAGAAAAGGAACATATGAATTTTAGCTTTGTATCTTGCAAGTTT
TTCAGTTAGAAATTTCTTGAACTAGCTTTTACTTTTGATGATAACACCTTGTGTTTGTAA
TCACATCCTCAAATATATCTCTCTCTATATATAGGAAGATCCATATTTCTGTTGCTTTAA
AAAAGTAAAGCCTTCCTTCCATTTAAATAAGGTGACATGCATAAGATAACAAAGCTTCTT
TGATTTCCTTTTCCTCTGTAATTTAATAGATTTGTTGACTAGTGCTTGGGCACAGTATAA
ATTGGTGTCATTCGCTCTTGAAGCCATTTTTTAAAAAAATTTTTTTGG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GTTACCAGTGGAGCTTGTCTTCTGAGCTAATCCTATTGTCCTTTTATTGAAGGATGGCTG
TAGACTGCTCTAGCTTGAATATTGCAACATAGCATCTTAGATCTAGATAGGGACGCTAAT
GCCACAGTTGTAGGAGTGTGAAAAAAAGCACCTTGTATGTAGTAATGTATTTTGTATCTT
TGTTTTCTTTACTGACTGTTTATAACACTCAACTGACAATAGCTATGAACTGTATTTTAA
ATCATACTGTTGAATATTTTCCCTCTTTTGTTGGGAAGCGCATTTTAGTTTAACTGTGTC
TGTTTTTGTTGATAGCTTACCTGGAAGGCAGTGACCACTTTTTTATATTCCCTTAATGAA
ACCATTCAGCAGGGATACGCTGTTGAGGCTGGTTATAGAGGTTTTCTATAATAAATGTTC
AAGTATTTTTGTACATAACTGGTTAATTTTAATAAGAGATACCATTATGTGTAAAAAAAA
AAAGTAAAAATAAAAGCAAACAATTGTGGATGCAGTATGATTGTTATAATTATGCCAAAT
ACTTTATGTATGGAAAAAGAATATTTGTACATATGTGCTTTTAACAATAATTCTGCCATA
TTGACTTTACAATTTTGAATGTCAGAAAAAATAATATATGTTAAAATATTTATGTTTAGT
GAAAGTATTCATAATTGAGAAAAGGAACATATGAATTTTAGCTTTGTATCTTGCAAGTTT
TTCAGTTAGAAATTTCTTGAACTAGCTTTTACTTTTGATGATAACACCTTGTGTTTGTAA
TCACATCCTCAAATATATCTCTCTCTATATATAGGAAGATCCATATTTCTGTTGCTTTAA
AAAAGTAAAGCCTTCCTTCCATTTAAATAAGGTGACATGCATAAGATAACAAAGCTTCTT
TGATTTCCTTTTCCTCTGTAATTTAATAGATTTGTTGACTAGTGCTTGGGCACAGTATAA
ATTGGTGTCATTCGCTCTTGAAGCCATTTTTTAAAAAAATTTTTTTGG

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

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

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               185-460, + strand, RNAz p=0.986862
               

               
               501-620, - strand, RNAz p=0.507989

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


               
               185-460, + strand, RNAz p=0.986862
               

               
               501-620, - strand, RNAz p=0.507989

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               524-628, - strand, RNAmicro p=0.949236

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


               
               524-628, - strand, RNAmicro p=0.949236

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               188-460, H3068H12-5 NIA Mouse 15K cDNA Clone Set Mus musculus cDNA clone 
(gb|BG081778.2|), blast E-value=0, identity=94.87% 
               

               
               188-460, UI-M-BZ1-ble-h-06-0-UI.r1 NIH_BMAP_MHI2_S1 Mus musculus cDNA clone 
(gb|BM941301.1|), blast E-value=0, identity=94.87% 
               

               
               188-460, CH3#030_C01T7 Canine heart normalized cDNA Library in pBluescript 
(gb|BU749987.1|), blast E-value=0, identity=95.24% 
               

               
               188-460, CH3#069_H09MF Canine heart normalized cDNA Library in pBluescript 
(gb|CF410868.1|), blast E-value=0, identity=95.6% 
               

               
               185-460, BovGen_09839 normal cattle brain Bos taurus cDNA clone 
(gb|CO881514.1|), blast E-value=0, identity=96.01% 
               

               
               188-460, NMA04055 Mus Musculus Lateral Ventricle Wall C57BL/6 adult Mus 
(gb|CX241171.1|), blast E-value=0, identity=94.87%

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


               
               188-460, H3068H12-5 NIA Mouse 15K cDNA Clone Set Mus musculus cDNA clone 
(gb|BG081778.2|), blast E-value=0, identity=94.87% 
               

               
               188-460, UI-M-BZ1-ble-h-06-0-UI.r1 NIH_BMAP_MHI2_S1 Mus musculus cDNA clone 
(gb|BM941301.1|), blast E-value=0, identity=94.87% 
               

               
               188-460, CH3#030_C01T7 Canine heart normalized cDNA Library in pBluescript 
(gb|BU749987.1|), blast E-value=0, identity=95.24% 
               

               
               188-460, CH3#069_H09MF Canine heart normalized cDNA Library in pBluescript 
(gb|CF410868.1|), blast E-value=0, identity=95.6% 
               

               
               185-460, BovGen_09839 normal cattle brain Bos taurus cDNA clone 
(gb|CO881514.1|), blast E-value=0, identity=96.01% 
               

               
               188-460, NMA04055 Mus Musculus Lateral Ventricle Wall C57BL/6 adult Mus 
(gb|CX241171.1|), blast E-value=0, identity=94.87%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of AB018259, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of AB018259, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-950, gnl|bosTau2|chr4 (28819123-28820067)
               

               
               1-950, gnl|Hg17|chr7 (110961257-110960329)
               

               
               1-950, gnl|Mm7|chr12 (38679002-38679976)

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


               
               1-950, gnl|bosTau2|chr4 (28819123-28820067)
               

               
               1-950, gnl|Hg17|chr7 (110961257-110960329)
               

               
               1-950, gnl|Mm7|chr12 (38679002-38679976)

Expressed library(ies): 6 entry(ies)

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Expressed library(ies): 6 entry(ies)

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               bfe (0.299715)
               

               
               tra (0.246184)
               

               
               liv (0.146284)
               

               
               lin (0.145603)
               

               
               kid (0.129735)
               

               
               ret (0.128733)

Expressed library(ies): 6 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


               
               bfe (0.299715)
               

               
               tra (0.246184)
               

               
               liv (0.146284)
               

               
               lin (0.145603)
               

               
               kid (0.129735)
               

               
               ret (0.128733)

	185-460, + strand, RNAz p=0.986862
	501-620, - strand, RNAz p=0.507989

	188-460, H3068H12-5 NIA Mouse 15K cDNA Clone Set Mus musculus cDNA clone (gb\|BG081778.2\|), blast E-value=0, identity=94.87%
	188-460, UI-M-BZ1-ble-h-06-0-UI.r1 NIH_BMAP_MHI2_S1 Mus musculus cDNA clone (gb\|BM941301.1\|), blast E-value=0, identity=94.87%
	188-460, CH3#030_C01T7 Canine heart normalized cDNA Library in pBluescript (gb\|BU749987.1\|), blast E-value=0, identity=95.24%
	188-460, CH3#069_H09MF Canine heart normalized cDNA Library in pBluescript (gb\|CF410868.1\|), blast E-value=0, identity=95.6%
	185-460, BovGen_09839 normal cattle brain Bos taurus cDNA clone (gb\|CO881514.1\|), blast E-value=0, identity=96.01%
	188-460, NMA04055 Mus Musculus Lateral Ventricle Wall C57BL/6 adult Mus (gb\|CX241171.1\|), blast E-value=0, identity=94.87%

	1-950, gnl\|bosTau2\|chr4 (28819123-28820067)
	1-950, gnl\|Hg17\|chr7 (110961257-110960329)
	1-950, gnl\|Mm7\|chr12 (38679002-38679976)

	bfe (0.299715)
	tra (0.246184)
	liv (0.146284)
	lin (0.145603)
	kid (0.129735)
	ret (0.128733)