Non-Coding RNA Search

Ss1.1-Pig4-TMW8042F14.5

Sequence:


               
               CTGGGCCGCCGCCTCTGCTACTGGGCAGTGCCTCCGACATGAAGGCCGAGCTCTCGCAGC
TTATTAACGACCTGGGCGAACTCAGCTTCGGCAACGACGTGCGCAGCCTGCAGGCGGACC
TGCGGGTGACGCGCCTGCTGTCGGGCGAGAGCACCGGCAGCGAGAGCTCCATCGAAGGCG
GGGGCCCGGACGCCACTACTGCCACCACCGAGGACCAGTCCACCGACTGCGGCAGCCCAG
ATGAGCCCCTCTCGGGCTGAACTCCTAACCATGCACTGTGCGCGCCCCTTTGGCCCCCTA
CCCTCTCCATCGTCTCCTTACCGCCCCCCACCCCCAGGAAAGGGGAAACGGGACACTTGA
GGCCCAGACCCGCCCCTCATACTTTTGGCTCTGTTTGAAGCGGGGCTCAGATTGCACGTG
GAGATATGGGGGAGAGAAACCCTAACAAGGCAGGGGAGAGAGGCAGGCCTCTGGGGTCTG
GAGAAAGGAAGGGCCGCTGGTGTTAGCAAAGCCCCGCAGGCGTGAGGTGCCTGCCGGCCA
GTTTCCTGTTTGTGGGGCAGCTGGGGCCTCAGGAGGAGGGGTTAACTTCCTCCCCCACCC
CCCAACTGGGAGCGGCCTAGCGCTGTCATTGACAAGTCATTTGAAAAAAAAAAAAAAAAA
GAATTTGTTCTCACAATGTTTGAGGCTTTGATGCCACCTCCTTGCCCCTCGTCTTCTTGG
TGCGAACGCTTGGGTTGTTTACCTCAGATTCAGACCCTTGAAATTTTGCCAAATTCCTCA
AATAACTGGTGGGGAGAGGAGGGGGGAAGAAAGAAAGTTGCATTTTGTTTACAGTTAAAG
ACATCGAATATCTAAAAAAGGAGTTTTCCTTTAGAAACACACACACCTTCCTACTCAAAA
GATCACACTCCATGATACTGTGTAAAATATTTTTGCACTGTCGTGAAGTATTTTTGACTT
TTTTTTTGTACATAACTGTGTTTTCAGAGTTGAATGTTTATATCTTTTGCTGTGCAAAAG
GGACATGTAAAATGTTGTTCAGTTGTATATACGGAAATGTGTATAAAACATTTTGTTATT
TTTTAAGAGTAGCACTGCCCTGGTTCTGTTTGCACGCCAGTGGGGAAAGAATAAAGAGGA
AAATTGAACAGAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTGGGCCGCCGCCTCTGCTACTGGGCAGTGCCTCCGACATGAAGGCCGAGCTCTCGCAGC
TTATTAACGACCTGGGCGAACTCAGCTTCGGCAACGACGTGCGCAGCCTGCAGGCGGACC
TGCGGGTGACGCGCCTGCTGTCGGGCGAGAGCACCGGCAGCGAGAGCTCCATCGAAGGCG
GGGGCCCGGACGCCACTACTGCCACCACCGAGGACCAGTCCACCGACTGCGGCAGCCCAG
ATGAGCCCCTCTCGGGCTGAACTCCTAACCATGCACTGTGCGCGCCCCTTTGGCCCCCTA
CCCTCTCCATCGTCTCCTTACCGCCCCCCACCCCCAGGAAAGGGGAAACGGGACACTTGA
GGCCCAGACCCGCCCCTCATACTTTTGGCTCTGTTTGAAGCGGGGCTCAGATTGCACGTG
GAGATATGGGGGAGAGAAACCCTAACAAGGCAGGGGAGAGAGGCAGGCCTCTGGGGTCTG
GAGAAAGGAAGGGCCGCTGGTGTTAGCAAAGCCCCGCAGGCGTGAGGTGCCTGCCGGCCA
GTTTCCTGTTTGTGGGGCAGCTGGGGCCTCAGGAGGAGGGGTTAACTTCCTCCCCCACCC
CCCAACTGGGAGCGGCCTAGCGCTGTCATTGACAAGTCATTTGAAAAAAAAAAAAAAAAA
GAATTTGTTCTCACAATGTTTGAGGCTTTGATGCCACCTCCTTGCCCCTCGTCTTCTTGG
TGCGAACGCTTGGGTTGTTTACCTCAGATTCAGACCCTTGAAATTTTGCCAAATTCCTCA
AATAACTGGTGGGGAGAGGAGGGGGGAAGAAAGAAAGTTGCATTTTGTTTACAGTTAAAG
ACATCGAATATCTAAAAAAGGAGTTTTCCTTTAGAAACACACACACCTTCCTACTCAAAA
GATCACACTCCATGATACTGTGTAAAATATTTTTGCACTGTCGTGAAGTATTTTTGACTT
TTTTTTTGTACATAACTGTGTTTTCAGAGTTGAATGTTTATATCTTTTGCTGTGCAAAAG
GGACATGTAAAATGTTGTTCAGTTGTATATACGGAAATGTGTATAAAACATTTTGTTATT
TTTTAAGAGTAGCACTGCCCTGGTTCTGTTTGCACGCCAGTGGGGAAAGAATAAAGAGGA
AAATTGAACAGAAAAAAAAAAAAA

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

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

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               40-159, + strand, RNAz p=0.806211
               

               
               486-682, - strand, RNAz p=0.999638
               

               
               982-1153, - strand, RNAz p=0.767565

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


               
               40-159, + strand, RNAz p=0.806211
               

               
               486-682, - strand, RNAz p=0.999638
               

               
               982-1153, - strand, RNAz p=0.767565

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               985-1047, + strand, RNAmicro p=0.933855

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


               
               985-1047, + strand, RNAmicro p=0.933855

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               486-643, DB807399 full-length enriched swine cDNA library, adult lung Sus 
(dbj|DB807399.1|), blast E-value=0, identity=91.77% 
               

               
               486-643, DB818490 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB818490.1|), blast E-value=0, identity=92.41% 
               

               
               486-591, AM023389 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007391l05 
(emb|AM023389.1|), blast E-value=2e-32, identity=92.45% 
               

               
               487-591, 1367272 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN534323.1|), 
blast E-value=7e-32, identity=92.38% 
               

               
               487-591, 1470641 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT889710.1|), 
blast E-value=7e-32, identity=92.38% 
               

               
               487-591, 1472177 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT891067.1|), 
blast E-value=7e-32, identity=92.38%

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


               
               486-643, DB807399 full-length enriched swine cDNA library, adult lung Sus 
(dbj|DB807399.1|), blast E-value=0, identity=91.77% 
               

               
               486-643, DB818490 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB818490.1|), blast E-value=0, identity=92.41% 
               

               
               486-591, AM023389 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007391l05 
(emb|AM023389.1|), blast E-value=2e-32, identity=92.45% 
               

               
               487-591, 1367272 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN534323.1|), 
blast E-value=7e-32, identity=92.38% 
               

               
               487-591, 1470641 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT889710.1|), 
blast E-value=7e-32, identity=92.38% 
               

               
               487-591, 1472177 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT891067.1|), 
blast E-value=7e-32, identity=92.38%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1153, gnl|bosTau2|chr1 (43641142-43639960)
               

               
               1-1153, gnl|Hg17|chr3 (195889859-195891063)
               

               
               1-1153, gnl|Mm7|chr16 (30275624-30276808)

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


               
               1-1153, gnl|bosTau2|chr1 (43641142-43639960)
               

               
               1-1153, gnl|Hg17|chr3 (195889859-195891063)
               

               
               1-1153, gnl|Mm7|chr16 (30275624-30276808)

Expressed library(ies): 14 entry(ies)

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Expressed library(ies): 14 entry(ies)

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               elu (0.385356)
               

               
               jca (0.22792)
               

               
               aor (0.195274)
               

               
               cmu (0.186393)
               

               
               liv (0.146284)
               

               
               csk (0.140746)
               

               
               hlv (0.139256)
               

               
               lyg (0.133103)
               

               
               ute (0.132784)
               

               
               sug (0.127291)
               

               
               ese (0.126502)
               

               
               cly (0.120642)
               

               
               pgl (0.118483)
               

               
               spc (0.113366)

Expressed library(ies): 14 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


               
               elu (0.385356)
               

               
               jca (0.22792)
               

               
               aor (0.195274)
               

               
               cmu (0.186393)
               

               
               liv (0.146284)
               

               
               csk (0.140746)
               

               
               hlv (0.139256)
               

               
               lyg (0.133103)
               

               
               ute (0.132784)
               

               
               sug (0.127291)
               

               
               ese (0.126502)
               

               
               cly (0.120642)
               

               
               pgl (0.118483)
               

               
               spc (0.113366)

	40-159, + strand, RNAz p=0.806211
	486-682, - strand, RNAz p=0.999638
	982-1153, - strand, RNAz p=0.767565

	486-643, DB807399 full-length enriched swine cDNA library, adult lung Sus (dbj\|DB807399.1\|), blast E-value=0, identity=91.77%
	486-643, DB818490 full-length enriched swine cDNA library, adult thymus Sus (dbj\|DB818490.1\|), blast E-value=0, identity=92.41%
	486-591, AM023389 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007391l05 (emb\|AM023389.1\|), blast E-value=2e-32, identity=92.45%
	487-591, 1367272 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN534323.1\|), blast E-value=7e-32, identity=92.38%
	487-591, 1470641 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DT889710.1\|), blast E-value=7e-32, identity=92.38%
	487-591, 1472177 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DT891067.1\|), blast E-value=7e-32, identity=92.38%

	1-1153, gnl\|bosTau2\|chr1 (43641142-43639960)
	1-1153, gnl\|Hg17\|chr3 (195889859-195891063)
	1-1153, gnl\|Mm7\|chr16 (30275624-30276808)

	elu (0.385356)
	jca (0.22792)
	aor (0.195274)
	cmu (0.186393)
	liv (0.146284)
	csk (0.140746)
	hlv (0.139256)
	lyg (0.133103)
	ute (0.132784)
	sug (0.127291)
	ese (0.126502)
	cly (0.120642)
	pgl (0.118483)
	spc (0.113366)