Non-Coding RNA Search

Ss1.1-Pig4-TMW8035O14.5

Sequence:


               
               CAGAGGTTGTGAGGCCACGCTGCATGACCTGCTGAAATGAGTGGCAAGTGGATATTTCCA
AGGATGAGGTTGTACTCCTTCCAGCCAGCCGTGGACATGAGTGAGGTGTGGCTGGGTCAA
AAGCAGACCATCCTGACTGCAGTGAAGTTGCGGAAACTGAGTCTCAGGATGGGACAGGGC
CATTCTGACATCACACAGAACAAAGAAGCCAGTCTGTGGAGTCTGACATATCTGGACTGG
TCCTCCTAAGGGATCAAATGTCCAGCGTAGGGTCTGAGACTGTTCAACTCAACTTGTCTA
TGCTGGCCTGGCAGCCAACCTGGGGTCCCTTGGAAGCCTCCAGTCTGGGTGAGACAGAGT
CAAACATAAATCTTGGGACCAGAAGAAGGGACCCAGAAGCTGGGAGAGTCCAAAGGAGGA
GCAGAGAAGGCTTCCTGGAGGAAAGGGCTTTTTTACCAAAGGCTTTGGCATATGAATAAG
AGCTCAGAAGGCAGGCGAACAAGAAGAAGAAAAAGTCGAAGAGGGTCAGAGCTGAGTGAT
GTTTGGAGACTGCCCCCTTGATCTCAGAACTGGGGCTCAGAGGGCAAGTGCCTCAGTTGA
GGCCTTACCGTAAGATCGGCGGGCAAGAGGGCCCAGGAATGAGGCATTCAGGGAAAGCAG
GTTGTCAGACCCTTGTGGAGCCAGCAGACAATAGGGGCAGCAATTCAGCCTTTGAAACCT
TTGCAAGTCAGAGATTCTTGGCCCAGGCTGAATTGCCTGGGGGACCCTTCCACACACTCC
AAGACATAAGATCTGCCTGAATACTGTATAGCCCAAGAAATCCAAGTGGAGCAGACAAGA
CCCAACTACATAATTTTTGCAAAATGAAGATGCAAGGCCCCTTATTCAAGAACCAAGAAT
TTCAAGACAGGGACAGCAGAGCATTAAACCAGGCTGTGGGGACCAAGGTCAGCCTGGGAA
CACACAGCAGGGCCAGTGTGCTTCTGGATACTCCCTGTGTCCTGGAGGGACAGAACACGG
CGGGGCCGCTGGACAAGCCCCCAAGTGCAGAGTCCCAGGCCTGGCGGGGGCAGGGCCCCC
ACCTGGGACTCCACATTTCTGACAAGCCTTAACTTGTTCTCTTTTGTATAATTATTTTTT
AAAAAAAAAAATTAAAAAGCACAG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CAGAGGTTGTGAGGCCACGCTGCATGACCTGCTGAAATGAGTGGCAAGTGGATATTTCCA
AGGATGAGGTTGTACTCCTTCCAGCCAGCCGTGGACATGAGTGAGGTGTGGCTGGGTCAA
AAGCAGACCATCCTGACTGCAGTGAAGTTGCGGAAACTGAGTCTCAGGATGGGACAGGGC
CATTCTGACATCACACAGAACAAAGAAGCCAGTCTGTGGAGTCTGACATATCTGGACTGG
TCCTCCTAAGGGATCAAATGTCCAGCGTAGGGTCTGAGACTGTTCAACTCAACTTGTCTA
TGCTGGCCTGGCAGCCAACCTGGGGTCCCTTGGAAGCCTCCAGTCTGGGTGAGACAGAGT
CAAACATAAATCTTGGGACCAGAAGAAGGGACCCAGAAGCTGGGAGAGTCCAAAGGAGGA
GCAGAGAAGGCTTCCTGGAGGAAAGGGCTTTTTTACCAAAGGCTTTGGCATATGAATAAG
AGCTCAGAAGGCAGGCGAACAAGAAGAAGAAAAAGTCGAAGAGGGTCAGAGCTGAGTGAT
GTTTGGAGACTGCCCCCTTGATCTCAGAACTGGGGCTCAGAGGGCAAGTGCCTCAGTTGA
GGCCTTACCGTAAGATCGGCGGGCAAGAGGGCCCAGGAATGAGGCATTCAGGGAAAGCAG
GTTGTCAGACCCTTGTGGAGCCAGCAGACAATAGGGGCAGCAATTCAGCCTTTGAAACCT
TTGCAAGTCAGAGATTCTTGGCCCAGGCTGAATTGCCTGGGGGACCCTTCCACACACTCC
AAGACATAAGATCTGCCTGAATACTGTATAGCCCAAGAAATCCAAGTGGAGCAGACAAGA
CCCAACTACATAATTTTTGCAAAATGAAGATGCAAGGCCCCTTATTCAAGAACCAAGAAT
TTCAAGACAGGGACAGCAGAGCATTAAACCAGGCTGTGGGGACCAAGGTCAGCCTGGGAA
CACACAGCAGGGCCAGTGTGCTTCTGGATACTCCCTGTGTCCTGGAGGGACAGAACACGG
CGGGGCCGCTGGACAAGCCCCCAAGTGCAGAGTCCCAGGCCTGGCGGGGGCAGGGCCCCC
ACCTGGGACTCCACATTTCTGACAAGCCTTAACTTGTTCTCTTTTGTATAATTATTTTTT
AAAAAAAAAAATTAAAAAGCACAG

Predicted RNA structure(s): 3 entry(ies)

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Predicted RNA structure(s): 3 entry(ies)

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               320-428, - strand, RNAz p=0.970525
               

               
               509-846, - strand, RNAz p=0.999715
               

               
               1005-1151, - strand, RNAz p=0.999773

Predicted RNA structure(s): 3 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


               
               320-428, - strand, RNAz p=0.970525
               

               
               509-846, - strand, RNAz p=0.999715
               

               
               1005-1151, - strand, RNAz p=0.999773

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               1093-1177, - strand, RNAmicro p=0.998597

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


               
               1093-1177, - strand, RNAmicro p=0.998597

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               1022-1112, DB334934 SYNOV3 Homo sapiens cDNA clone SYNOV3000345 3', mRNA 
(dbj|DB334934.1|), blast E-value=2e-16, identity=87.91% 
               

               
               1022-1112, DB349899 TRACH3 Homo sapiens cDNA clone TRACH3022198 3', mRNA 
(dbj|DB349899.1|), blast E-value=2e-16, identity=87.91% 
               

               
               1022-1112, DB521985 RIKEN full-length enriched human cDNA library, testis Homo 
(dbj|DB521985.1|), blast E-value=2e-16, identity=87.91% 
               

               
               1022-1112, DB528291 RIKEN full-length enriched human cDNA library, hippocampus 
(dbj|DB528291.1|), blast E-value=2e-16, identity=87.91% 
               

               
               1022-1112, DB540272 RIKEN full-length enriched human cDNA library, hippocampus 
(dbj|DB540272.1|), blast E-value=2e-16, identity=87.91% 
               

               
               1022-1112, DB551815 RIKEN full-length enriched human cDNA library, hippocampus 
(dbj|DB551815.1|), blast E-value=2e-16, identity=87.91%

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


               
               1022-1112, DB334934 SYNOV3 Homo sapiens cDNA clone SYNOV3000345 3', mRNA 
(dbj|DB334934.1|), blast E-value=2e-16, identity=87.91% 
               

               
               1022-1112, DB349899 TRACH3 Homo sapiens cDNA clone TRACH3022198 3', mRNA 
(dbj|DB349899.1|), blast E-value=2e-16, identity=87.91% 
               

               
               1022-1112, DB521985 RIKEN full-length enriched human cDNA library, testis Homo 
(dbj|DB521985.1|), blast E-value=2e-16, identity=87.91% 
               

               
               1022-1112, DB528291 RIKEN full-length enriched human cDNA library, hippocampus 
(dbj|DB528291.1|), blast E-value=2e-16, identity=87.91% 
               

               
               1022-1112, DB540272 RIKEN full-length enriched human cDNA library, hippocampus 
(dbj|DB540272.1|), blast E-value=2e-16, identity=87.91% 
               

               
               1022-1112, DB551815 RIKEN full-length enriched human cDNA library, hippocampus 
(dbj|DB551815.1|), blast E-value=2e-16, identity=87.91%

Aligned organism(s): 2 entry(ies)

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Aligned organism(s): 2 entry(ies)

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               11-1151, gnl|bosTau2|chr7 (4431988-4430860)
               

               
               11-1151, gnl|Hg17|chr19 (17984751-17985897)

Aligned organism(s): 2 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


               
               11-1151, gnl|bosTau2|chr7 (4431988-4430860)
               

               
               11-1151, gnl|Hg17|chr19 (17984751-17985897)

Expressed library(ies): 11 entry(ies)

More info

Expressed library(ies): 11 entry(ies)

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               jca (0.34188)
               

               
               cag (0.302389)
               

               
               cga (0.279096)
               

               
               med (0.232504)
               

               
               mas (0.210305)
               

               
               fty (0.17584)
               

               
               nco (0.161734)
               

               
               cli (0.152812)
               

               
               hyp (0.142837)
               

               
               ute (0.132784)
               

               
               jej (0.0989218)

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


               
               jca (0.34188)
               

               
               cag (0.302389)
               

               
               cga (0.279096)
               

               
               med (0.232504)
               

               
               mas (0.210305)
               

               
               fty (0.17584)
               

               
               nco (0.161734)
               

               
               cli (0.152812)
               

               
               hyp (0.142837)
               

               
               ute (0.132784)
               

               
               jej (0.0989218)

	320-428, - strand, RNAz p=0.970525
	509-846, - strand, RNAz p=0.999715
	1005-1151, - strand, RNAz p=0.999773

	1022-1112, DB334934 SYNOV3 Homo sapiens cDNA clone SYNOV3000345 3', mRNA (dbj\|DB334934.1\|), blast E-value=2e-16, identity=87.91%
	1022-1112, DB349899 TRACH3 Homo sapiens cDNA clone TRACH3022198 3', mRNA (dbj\|DB349899.1\|), blast E-value=2e-16, identity=87.91%
	1022-1112, DB521985 RIKEN full-length enriched human cDNA library, testis Homo (dbj\|DB521985.1\|), blast E-value=2e-16, identity=87.91%
	1022-1112, DB528291 RIKEN full-length enriched human cDNA library, hippocampus (dbj\|DB528291.1\|), blast E-value=2e-16, identity=87.91%
	1022-1112, DB540272 RIKEN full-length enriched human cDNA library, hippocampus (dbj\|DB540272.1\|), blast E-value=2e-16, identity=87.91%
	1022-1112, DB551815 RIKEN full-length enriched human cDNA library, hippocampus (dbj\|DB551815.1\|), blast E-value=2e-16, identity=87.91%

	11-1151, gnl\|bosTau2\|chr7 (4431988-4430860)
	11-1151, gnl\|Hg17\|chr19 (17984751-17985897)

	jca (0.34188)
	cag (0.302389)
	cga (0.279096)
	med (0.232504)
	mas (0.210305)
	fty (0.17584)
	nco (0.161734)
	cli (0.152812)
	hyp (0.142837)
	ute (0.132784)
	jej (0.0989218)