Non-Coding RNA Search

Ss1.1-rmas913b_e17.5

Sequence:


               
               TTGAAGGTGGCAAGATGACAGTGCCCGACCAGACCTGTGGTTGTGTCTGTGTGATGGTGT
GATGGTGTGATGGTGTGTGTGCGCACAGGCCTCCAAATGTGTATCTGGGCCTGTGTGGAT
GTGTGTGCATCAAGCATCTGTGTCACTTCTCAGGAAGGAGTGACACAGACTGAGAAGGAA
GGGGGAGGAGACGACTGTTTCCTTGAGGCTTTTCTAGGCTAAGATGAAAGCAAGTTTGAA
GCTCTTGGGAATCTGAGCTACTTAGAGTCTGGCCTCCCCACCAATCCCAACTTTGTATCC
TAAGCCTCATCTCTCCCGTTCAGGCCTCACATCTTCTGAACCACCTTTTCGCCCTGCGAT
TCCTTCTCCCATTACCCAGTCTCTTTATCCCTCCCTCTCACAGTAAGCTAGGGAGGGGGT
CAGCCATCCTGCCTTTCCCCAGGAAGAGAGACACTATTTCCCCAGAGCAGGGACCATCTG
GACAGAGGAAGGAAAAGAGAAAGGTTAGCATAAAACACCCTAGACCCTGTGCCCCACCTC
CTAAAGTGGTTCCCACCCAGAACTAATTTATTTTTTATTAAAAATGATTATGACAAATGA
AAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTGAAGGTGGCAAGATGACAGTGCCCGACCAGACCTGTGGTTGTGTCTGTGTGATGGTGT
GATGGTGTGATGGTGTGTGTGCGCACAGGCCTCCAAATGTGTATCTGGGCCTGTGTGGAT
GTGTGTGCATCAAGCATCTGTGTCACTTCTCAGGAAGGAGTGACACAGACTGAGAAGGAA
GGGGGAGGAGACGACTGTTTCCTTGAGGCTTTTCTAGGCTAAGATGAAAGCAAGTTTGAA
GCTCTTGGGAATCTGAGCTACTTAGAGTCTGGCCTCCCCACCAATCCCAACTTTGTATCC
TAAGCCTCATCTCTCCCGTTCAGGCCTCACATCTTCTGAACCACCTTTTCGCCCTGCGAT
TCCTTCTCCCATTACCCAGTCTCTTTATCCCTCCCTCTCACAGTAAGCTAGGGAGGGGGT
CAGCCATCCTGCCTTTCCCCAGGAAGAGAGACACTATTTCCCCAGAGCAGGGACCATCTG
GACAGAGGAAGGAAAAGAGAAAGGTTAGCATAAAACACCCTAGACCCTGTGCCCCACCTC
CTAAAGTGGTTCCCACCCAGAACTAATTTATTTTTTATTAAAAATGATTATGACAAATGA
AAAAAAAAAAAA

Predicted RNA structure(s): 4 entry(ies)

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Predicted RNA structure(s): 4 entry(ies)

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               38-156, - strand, RNAz p=0.995039
               

               
               69-228, - strand, RNAz p=0.99998
               

               
               306-491, - strand, RNAz p=0.980407
               

               
               332-478, - strand, RNAz p=0.999921

Predicted RNA structure(s): 4 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


               
               38-156, - strand, RNAz p=0.995039
               

               
               69-228, - strand, RNAz p=0.99998
               

               
               306-491, - strand, RNAz p=0.980407
               

               
               332-478, - strand, RNAz p=0.999921

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               483-626, - strand, RNAmicro p=0.999978

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


               
               483-626, - strand, RNAmicro p=0.999978

Similar Transcript(s): 1 entry(ies)

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Similar Transcript(s): 1 entry(ies)

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               332-478, DB794505 full-length enriched swine cDNA library, adult immature 
(dbj|DB794505.1|), blast E-value=0, identity=100%

Similar Transcript(s): 1 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


               
               332-478, DB794505 full-length enriched swine cDNA library, adult immature 
(dbj|DB794505.1|), blast E-value=0, identity=100%

Homologous human UTR: 3 entry(ies)

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Homologous human UTR: 3 entry(ies)

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               5' of AK127688, -
               

               
               5' of AK127688, -
               

               
               5' of AK127688, -

Homologous human UTR: 3 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of AK127688, -
               

               
               5' of AK127688, -
               

               
               5' of AK127688, -

Aligned organism(s): 12 entry(ies)

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Aligned organism(s): 12 entry(ies)

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               3-604, gnl|bosTau2|chr3 (16960973-16960378)
               

               
               3-604, gnl|canFam2|chr17 (62826540-62826964)
               

               
               3-604, gnl|dasNov1|scaffold_42724 (5982-5548)
               

               
               3-604, gnl|echTel1|scaffold_324356 (229624-229207)
               

               
               3-604, gnl|hg17|chr1 (147345784-147346221)
               

               
               3-604, gnl|Hg17|chr1 (147345869-147346486)
               

               
               3-604, gnl|mm7|chr3 (95550743-95550386)
               

               
               3-604, gnl|Mm7|chr3 (95550664-95550151)
               

               
               3-604, gnl|monDom2|scaffold_44 (3739981-3740360)
               

               
               3-604, gnl|panTro1|chr1 (129069376-129069813)
               

               
               3-604, gnl|rheMac2|chr1 (128943584-128944017)
               

               
               3-604, gnl|rn3|chr2_random (2876856-2877133)

Aligned organism(s): 12 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


               
               3-604, gnl|bosTau2|chr3 (16960973-16960378)
               

               
               3-604, gnl|canFam2|chr17 (62826540-62826964)
               

               
               3-604, gnl|dasNov1|scaffold_42724 (5982-5548)
               

               
               3-604, gnl|echTel1|scaffold_324356 (229624-229207)
               

               
               3-604, gnl|hg17|chr1 (147345784-147346221)
               

               
               3-604, gnl|Hg17|chr1 (147345869-147346486)
               

               
               3-604, gnl|mm7|chr3 (95550743-95550386)
               

               
               3-604, gnl|Mm7|chr3 (95550664-95550151)
               

               
               3-604, gnl|monDom2|scaffold_44 (3739981-3740360)
               

               
               3-604, gnl|panTro1|chr1 (129069376-129069813)
               

               
               3-604, gnl|rheMac2|chr1 (128943584-128944017)
               

               
               3-604, gnl|rn3|chr2_random (2876856-2877133)

Expressed library(ies): 3 entry(ies)

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Expressed library(ies): 3 entry(ies)

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               mas (0.210305)
               

               
               ton (0.1755)
               

               
               nca (0.136874)

Expressed library(ies): 3 entry(ies)

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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


               
               mas (0.210305)
               

               
               ton (0.1755)
               

               
               nca (0.136874)

	38-156, - strand, RNAz p=0.995039
	69-228, - strand, RNAz p=0.99998
	306-491, - strand, RNAz p=0.980407
	332-478, - strand, RNAz p=0.999921

	3-604, gnl\|bosTau2\|chr3 (16960973-16960378)
	3-604, gnl\|canFam2\|chr17 (62826540-62826964)
	3-604, gnl\|dasNov1\|scaffold_42724 (5982-5548)
	3-604, gnl\|echTel1\|scaffold_324356 (229624-229207)
	3-604, gnl\|hg17\|chr1 (147345784-147346221)
	3-604, gnl\|Hg17\|chr1 (147345869-147346486)
	3-604, gnl\|mm7\|chr3 (95550743-95550386)
	3-604, gnl\|Mm7\|chr3 (95550664-95550151)
	3-604, gnl\|monDom2\|scaffold_44 (3739981-3740360)
	3-604, gnl\|panTro1\|chr1 (129069376-129069813)
	3-604, gnl\|rheMac2\|chr1 (128943584-128944017)
	3-604, gnl\|rn3\|chr2_random (2876856-2877133)