Non-Coding RNA Search

Ss1.1-Pig4-TMW8038K20.3

Sequence:


               
               GGAGAATGGGCCGCCCTCCTCGCCGGACCTGGACCGTATCGCGGCGAGCATGCGCGCGCT
GGTGCTGCGGGAGGCGGAGGACACTCAGGTCTTCGGGGACCTGCCGCGGCCACGGCTCAA
CACCAGTGACTTCCAGAAGCTGAAGCGGAAATACTGAGGCCCAGGGAGGGAGCTTCCCGG
CCCGGCGCCCGCCCCACCCAACACTACACCCCCGCCCCGCCTCCGGGACCTGCCAATCCG
AGTCAGAGCTATGACCGGCCTCCCACGGTCCCTGGCCCCAGGATTGACCCGTCCCTGGTC
CCTGCGGATCCCCACCGCCCTTCCGGCCCCCAGCCGCTCCAGCGCCTGTCCAGTTTCCCG
ATTGGGTCTGTCTTCTCTCCGCCCAGCGACAGATTCTTTCTATTAAGGGATTGGCGTGGT
CCCGCATCAGGGCGCGGCCAGTTGACTTAATAGGTCAACTCTGTCGTTTTCTGCCTAGCA
ACAAGGGCTTTGCTCTCACGGCATTGGCTCCGTTCCCGAAAGAGCACAGTCAAGCTGCAG
GATTGGGTAGTAGCCCTCCACTTCGCATAGTGAATGGGCAGTTCCTTCGTTTGATTGGCT
TGAACACTGTAAAGGGCTTGACCAACATCCCAAGAGTCCTGTCCACCCCGAGTTACCCCA
CCTGATTGGCTCCAGCCTCCTGGGGGCGTGGCCAATCCCCTTTGCCCAGGATTGGCCTGT
GGCCTTACATTTACAGTCTTTACACTACTGGGGCTGGGGTCGTTTTTTGGCTCAGTCCTG
ACAATTGTCCCTCTGGCCCCCTCAAGGATGGCCTAATCCTGTTCCTGCGTCTGACACCCT
CTCATTGGTTTTATCACAACTGCCTGCCAATCAAAACCCGTCCTTGTGTCCAGGACGTTA
CCAGCTCCCGCCCCTCTCCCCCCACCCCCACAGGTGCCTTAAAGGGCCCTCGTCCACCCA
AGGTGGAGGGCAGGGGGCCTCACTCTCCGGCCCTGGTGTGGGGGAGAGAATGGGGGGTCG
GGATCAGGAGTTGAGAGGGGCGCTCCGAGATTAAAGAGTTTTACCTCTGAAAAAAAAAAA
AAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGAGAATGGGCCGCCCTCCTCGCCGGACCTGGACCGTATCGCGGCGAGCATGCGCGCGCT
GGTGCTGCGGGAGGCGGAGGACACTCAGGTCTTCGGGGACCTGCCGCGGCCACGGCTCAA
CACCAGTGACTTCCAGAAGCTGAAGCGGAAATACTGAGGCCCAGGGAGGGAGCTTCCCGG
CCCGGCGCCCGCCCCACCCAACACTACACCCCCGCCCCGCCTCCGGGACCTGCCAATCCG
AGTCAGAGCTATGACCGGCCTCCCACGGTCCCTGGCCCCAGGATTGACCCGTCCCTGGTC
CCTGCGGATCCCCACCGCCCTTCCGGCCCCCAGCCGCTCCAGCGCCTGTCCAGTTTCCCG
ATTGGGTCTGTCTTCTCTCCGCCCAGCGACAGATTCTTTCTATTAAGGGATTGGCGTGGT
CCCGCATCAGGGCGCGGCCAGTTGACTTAATAGGTCAACTCTGTCGTTTTCTGCCTAGCA
ACAAGGGCTTTGCTCTCACGGCATTGGCTCCGTTCCCGAAAGAGCACAGTCAAGCTGCAG
GATTGGGTAGTAGCCCTCCACTTCGCATAGTGAATGGGCAGTTCCTTCGTTTGATTGGCT
TGAACACTGTAAAGGGCTTGACCAACATCCCAAGAGTCCTGTCCACCCCGAGTTACCCCA
CCTGATTGGCTCCAGCCTCCTGGGGGCGTGGCCAATCCCCTTTGCCCAGGATTGGCCTGT
GGCCTTACATTTACAGTCTTTACACTACTGGGGCTGGGGTCGTTTTTTGGCTCAGTCCTG
ACAATTGTCCCTCTGGCCCCCTCAAGGATGGCCTAATCCTGTTCCTGCGTCTGACACCCT
CTCATTGGTTTTATCACAACTGCCTGCCAATCAAAACCCGTCCTTGTGTCCAGGACGTTA
CCAGCTCCCGCCCCTCTCCCCCCACCCCCACAGGTGCCTTAAAGGGCCCTCGTCCACCCA
AGGTGGAGGGCAGGGGGCCTCACTCTCCGGCCCTGGTGTGGGGGAGAGAATGGGGGGTCG
GGATCAGGAGTTGAGAGGGGCGCTCCGAGATTAAAGAGTTTTACCTCTGAAAAAAAAAAA
AAAAAAAAAAAA

Predicted RNA structure(s): 1 entry(ies)

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Predicted RNA structure(s): 1 entry(ies)

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               858-1074, + strand, RNAz p=0.992346

Predicted RNA structure(s): 1 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


               
               858-1074, + strand, RNAz p=0.992346

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               924-1072, - strand, RNAmicro p=0.98925

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


               
               924-1072, - strand, RNAmicro p=0.98925

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               930-906, DB815099 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB815099.1|), blast E-value=2e-17, identity=100% 
               

               
               930-1070, 268823 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BF603332.1|), 
blast E-value=0, identity=93.71% 
               

               
               930-1070, 963574 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb|CK774784.1|), 
blast E-value=0, identity=93.71% 
               

               
               930-1070, 966732 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK775602.1|), 
blast E-value=0, identity=93.71% 
               

               
               930-1069, CT020005A10G02 Equine Articular Cartilage cDNA Library Equus 
(gb|CX593443.1|), blast E-value=0, identity=94.29% 
               

               
               930-1070, PADT0811009_E04F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB414593.1|), blast E-value=0, identity=97.89%

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


               
               930-906, DB815099 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB815099.1|), blast E-value=2e-17, identity=100% 
               

               
               930-1070, 268823 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BF603332.1|), 
blast E-value=0, identity=93.71% 
               

               
               930-1070, 963574 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb|CK774784.1|), 
blast E-value=0, identity=93.71% 
               

               
               930-1070, 966732 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK775602.1|), 
blast E-value=0, identity=93.71% 
               

               
               930-1069, CT020005A10G02 Equine Articular Cartilage cDNA Library Equus 
(gb|CX593443.1|), blast E-value=0, identity=94.29% 
               

               
               930-1070, PADT0811009_E04F porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB414593.1|), blast E-value=0, identity=97.89%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of BC007416, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of BC007416, +

Aligned organism(s): 5 entry(ies)

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Aligned organism(s): 5 entry(ies)

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               10-443, gnl|bosTau2|chr18 (48903111-48902675)
               

               
               10-443, gnl|Hg17|chr19 (55065133-55064717)
               


               
               494-1074, gnl|bosTau2|chr18 (48902675-48902104)
               

               
               494-1074, gnl|Hg17|chr19 (55064634-55064112)
               

               
               494-1074, gnl|Mm7|chr7 (41029450-41029937)

Aligned organism(s): 5 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


               
               10-443, gnl|bosTau2|chr18 (48903111-48902675)
               

               
               10-443, gnl|Hg17|chr19 (55065133-55064717)
               


               
               494-1074, gnl|bosTau2|chr18 (48902675-48902104)
               

               
               494-1074, gnl|Hg17|chr19 (55064634-55064112)
               

               
               494-1074, gnl|Mm7|chr7 (41029450-41029937)

Expressed library(ies): 8 entry(ies)

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Expressed library(ies): 8 entry(ies)

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               clu (0.358938)
               

               
               nco (0.323468)
               

               
               eli (0.303628)
               

               
               eye (0.170503)
               

               
               ute (0.132784)
               

               
               cov (0.132153)
               

               
               eep (0.122564)
               

               
               ecc (0.115035)

Expressed library(ies): 8 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


               
               clu (0.358938)
               

               
               nco (0.323468)
               

               
               eli (0.303628)
               

               
               eye (0.170503)
               

               
               ute (0.132784)
               

               
               cov (0.132153)
               

               
               eep (0.122564)
               

               
               ecc (0.115035)

	930-906, DB815099 full-length enriched swine cDNA library, adult ovary Sus (dbj\|DB815099.1\|), blast E-value=2e-17, identity=100%
	930-1070, 268823 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb\|BF603332.1\|), blast E-value=0, identity=93.71%
	930-1070, 963574 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK774784.1\|), blast E-value=0, identity=93.71%
	930-1070, 966732 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK775602.1\|), blast E-value=0, identity=93.71%
	930-1069, CT020005A10G02 Equine Articular Cartilage cDNA Library Equus (gb\|CX593443.1\|), blast E-value=0, identity=94.29%
	930-1070, PADT0811009_E04F porcine adipose tissue cDNA library (PADT) Sus (gb\|EB414593.1\|), blast E-value=0, identity=97.89%

	10-443, gnl\|bosTau2\|chr18 (48903111-48902675)
	10-443, gnl\|Hg17\|chr19 (55065133-55064717)

	494-1074, gnl\|bosTau2\|chr18 (48902675-48902104)
	494-1074, gnl\|Hg17\|chr19 (55064634-55064112)
	494-1074, gnl\|Mm7\|chr7 (41029450-41029937)

	clu (0.358938)
	nco (0.323468)
	eli (0.303628)
	eye (0.170503)
	ute (0.132784)
	cov (0.132153)
	eep (0.122564)
	ecc (0.115035)