Non-Coding RNA Search

Ss1.1-Liv1-LVRM10078F12.5

Sequence:


               
               AGCCTGCAGATCAAAGCTGCAGCCAGTCACGCAGAGGGAAGGAGAGATTTTTTTGTTTTT
TTTTTTTAAAAACCCTGTTCGTTCTCTCTAAGAACTGAAAGATGCCTTGAATATTTATTC
AGTGACTCCTGGTTCAACCCAGAAACCAGTTTTGCATCGGGCACAAGCGCAGTGTTACAA
CCAGCTTCCTGCCCTCTCTTGAGGGAGTTCTGCTCCACTGTGGCTGTCAGGATGGTGACC
AAAGCATTTCTTGTCCCTTCTCTCTAAGGGCCTGGATTTCCCTGGAGGCCCCTGAGTTCC
TCAATGTGATTGGAGCCTTCTTTCTGCCATCCTTTAAGCACAGGGGGGCACCATGGCCTT
GGGAGAGGCGGCCCAGCGCGCCCCAGCTCGAGCCCCTGGCCCTGGGGACTCCCAGAGACA
GAGGAGCAGCCCCTGACCAAAGACAGCACGCAGCTGGCACTTTAAAGCACACGCAGCAGG
TGTGGCCTCCGGCGCCTTGACGGTGCTGCGTTGCCCAGAGCTTTCTTTCTGCCCTCCTTC
CATGGAAGGCGCCCAAAGTCCCCGTGGAGTGCCCCCAGCCGTGCTCAGAACCAGTGTAAC
TGGCTGCCCACGGACTCCCAGAGTCTGCCTGCAATAATGGGGTCCCCATCCTGCCCTCCC
GAGCTTCTGTTTGGTCTGAGTGCCACCTCCCCATACTTCCTGAGATGATGCGTGAAGCCT
AACACCTAGATTTGTTTGAGGATGTGCTGTTGCCCGTTTGTAGATGAGGAAACTGAGACC
ACAAGCGAAGAAGGGGTAGAGTTGAGTGTGGAATCCAGATCTGGTGCCAAAGCTGCCTTC
TCGCCTACACCTCGCAGCTCACACCTCCTTTTCTCTAGCTGTGTCGTCCTCCCAGGAACC
AAAAAGCCCCAGCTATTTTCTGACCAAAATGTGTTTCATAACAAACCATCTGGTGCCTTT
ACACACAGAACTGGCATGAGCCTCCGTGCCCTGCTAGCTGTCTCACTGTTGATTTCTGTG
AAAATGGAAGTGTTTGAAGTCTGCTAATTCAGAGGGTGAGACAAAACCAAACTTCGTAAG
CATCACGCTCTTCCTTCCTGACTCTTCGACACCAGGTCGGGGACATGCCCGCAGCAGCCC
GCCTGCAGAGTCTCCCTTCCTTCCCCCTTCCCACGCCCCGGGGCTCTCGGAAAAGCTGCC
AGCACCTTCTCCATCCTCAGGTACCTCCCAGGCCTGGCTTTACCGAGCTTGAGTCCCGGT
GACAGTTGGGGCAGGTTTCACCAGGCCAGGAAACACCCCATTTCTTAGAATCTACGCATC
AGACTAAGCGGCTGAATCAAAGCACAGAGACAGAAGTGCCTGGGTGAGGGGTGGGTGGGA
CTGTCTTTATCAGAGTGTGGGGACAACTTCCTTTCCTGGCCCAGCTCCGGTACCCCCTCT
GCCCACCCCGGACGACCTTGGCGTCAGCCCTTGTATTTGTCACAAGGCCGCCCTTGGCAC
GAAGGTCCAGGAGCCCTGAGAAAGGCCGTGCTGTGTTTGTGTGAGTCACGCTGTGGCCTT
CATCTGACTCTGGCCACCAGCGGTCGGTGTGCTCCCCTTGTGTCTGCAGATAAGTTTTGT
CGTGCTTTACTTTATGTTGCTGTAAAGGAAGTCCTAGTGAGGAAAAAATCAGCAATAAAT
GTTCTCTTTTTGAAATACAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AGCCTGCAGATCAAAGCTGCAGCCAGTCACGCAGAGGGAAGGAGAGATTTTTTTGTTTTT
TTTTTTTAAAAACCCTGTTCGTTCTCTCTAAGAACTGAAAGATGCCTTGAATATTTATTC
AGTGACTCCTGGTTCAACCCAGAAACCAGTTTTGCATCGGGCACAAGCGCAGTGTTACAA
CCAGCTTCCTGCCCTCTCTTGAGGGAGTTCTGCTCCACTGTGGCTGTCAGGATGGTGACC
AAAGCATTTCTTGTCCCTTCTCTCTAAGGGCCTGGATTTCCCTGGAGGCCCCTGAGTTCC
TCAATGTGATTGGAGCCTTCTTTCTGCCATCCTTTAAGCACAGGGGGGCACCATGGCCTT
GGGAGAGGCGGCCCAGCGCGCCCCAGCTCGAGCCCCTGGCCCTGGGGACTCCCAGAGACA
GAGGAGCAGCCCCTGACCAAAGACAGCACGCAGCTGGCACTTTAAAGCACACGCAGCAGG
TGTGGCCTCCGGCGCCTTGACGGTGCTGCGTTGCCCAGAGCTTTCTTTCTGCCCTCCTTC
CATGGAAGGCGCCCAAAGTCCCCGTGGAGTGCCCCCAGCCGTGCTCAGAACCAGTGTAAC
TGGCTGCCCACGGACTCCCAGAGTCTGCCTGCAATAATGGGGTCCCCATCCTGCCCTCCC
GAGCTTCTGTTTGGTCTGAGTGCCACCTCCCCATACTTCCTGAGATGATGCGTGAAGCCT
AACACCTAGATTTGTTTGAGGATGTGCTGTTGCCCGTTTGTAGATGAGGAAACTGAGACC
ACAAGCGAAGAAGGGGTAGAGTTGAGTGTGGAATCCAGATCTGGTGCCAAAGCTGCCTTC
TCGCCTACACCTCGCAGCTCACACCTCCTTTTCTCTAGCTGTGTCGTCCTCCCAGGAACC
AAAAAGCCCCAGCTATTTTCTGACCAAAATGTGTTTCATAACAAACCATCTGGTGCCTTT
ACACACAGAACTGGCATGAGCCTCCGTGCCCTGCTAGCTGTCTCACTGTTGATTTCTGTG
AAAATGGAAGTGTTTGAAGTCTGCTAATTCAGAGGGTGAGACAAAACCAAACTTCGTAAG
CATCACGCTCTTCCTTCCTGACTCTTCGACACCAGGTCGGGGACATGCCCGCAGCAGCCC
GCCTGCAGAGTCTCCCTTCCTTCCCCCTTCCCACGCCCCGGGGCTCTCGGAAAAGCTGCC
AGCACCTTCTCCATCCTCAGGTACCTCCCAGGCCTGGCTTTACCGAGCTTGAGTCCCGGT
GACAGTTGGGGCAGGTTTCACCAGGCCAGGAAACACCCCATTTCTTAGAATCTACGCATC
AGACTAAGCGGCTGAATCAAAGCACAGAGACAGAAGTGCCTGGGTGAGGGGTGGGTGGGA
CTGTCTTTATCAGAGTGTGGGGACAACTTCCTTTCCTGGCCCAGCTCCGGTACCCCCTCT
GCCCACCCCGGACGACCTTGGCGTCAGCCCTTGTATTTGTCACAAGGCCGCCCTTGGCAC
GAAGGTCCAGGAGCCCTGAGAAAGGCCGTGCTGTGTTTGTGTGAGTCACGCTGTGGCCTT
CATCTGACTCTGGCCACCAGCGGTCGGTGTGCTCCCCTTGTGTCTGCAGATAAGTTTTGT
CGTGCTTTACTTTATGTTGCTGTAAAGGAAGTCCTAGTGAGGAAAAAATCAGCAATAAAT
GTTCTCTTTTTGAAATACAAAAAA

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

More info

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

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               40-181, - strand, RNAz p=0.999247

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


               
               40-181, - strand, RNAz p=0.999247

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               116-181, BP137737 full-length enriched swine cDNA library, adult liver Sus 
(dbj|BP137737.1|), blast E-value=7e-28, identity=100% 
               

               
               116-181, BP139868 full-length enriched swine cDNA library, adult liver Sus 
(dbj|BP139868.1|), blast E-value=7e-28, identity=100% 
               

               
               89-181, BP140279 full-length enriched swine cDNA library, adult liver Sus 
(dbj|BP140279.1|), blast E-value=6.02558e-44, identity=100% 
               

               
               113-181, BP450979 full-length enriched swine cDNA library, adult liver Sus 
(dbj|BP450979.1|), blast E-value=1e-29, identity=100% 
               

               
               68-181, BP457836 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|BP457836.1|), blast E-value=0, identity=100% 
               

               
               68-181, CJ026669 full-length enriched swine cDNA library, adult trachea Sus 
(dbj|CJ026669.1|), blast E-value=0, identity=99.12%

Similar Transcript(s): 6 entry(ies)

Help | Less info

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


               
               116-181, BP137737 full-length enriched swine cDNA library, adult liver Sus 
(dbj|BP137737.1|), blast E-value=7e-28, identity=100% 
               

               
               116-181, BP139868 full-length enriched swine cDNA library, adult liver Sus 
(dbj|BP139868.1|), blast E-value=7e-28, identity=100% 
               

               
               89-181, BP140279 full-length enriched swine cDNA library, adult liver Sus 
(dbj|BP140279.1|), blast E-value=6.02558e-44, identity=100% 
               

               
               113-181, BP450979 full-length enriched swine cDNA library, adult liver Sus 
(dbj|BP450979.1|), blast E-value=1e-29, identity=100% 
               

               
               68-181, BP457836 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|BP457836.1|), blast E-value=0, identity=100% 
               

               
               68-181, CJ026669 full-length enriched swine cDNA library, adult trachea Sus 
(dbj|CJ026669.1|), blast E-value=0, identity=99.12%

Aligned organism(s): 15 entry(ies)

More info

Aligned organism(s): 15 entry(ies)

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               1-366, gnl|bosTau2|chr2 (80374984-80375335)
               

               
               1-366, gnl|Hg17|chr1 (25577746-25578122)
               


               
               372-592, gnl|bosTau2|chr2 (80375369-80375589)
               

               
               372-592, gnl|canFam2|chr2 (77233214-77232984)
               

               
               372-592, gnl|dasNov1|scaffold_28878 (9261-9021)
               

               
               372-592, gnl|echTel1|scaffold_323857 (4440-4207)
               

               
               372-592, gnl|hg17|chr1 (25578044-25578319)
               

               
               372-592, gnl|loxAfr1|scaffold_414 (117991-118245)
               

               
               372-592, gnl|mm7|chr4 (134125161-134124930)
               

               
               372-592, gnl|monDom2|scaffold_91 (2568581-2568786)
               

               
               372-592, gnl|panTro1|chr1 (26258894-26259169)
               

               
               372-592, gnl|rheMac2|chr1 (28170434-28170707)
               

               
               372-592, gnl|rn3|chr5 (153516529-153516293)
               


               
               751-1605, gnl|bosTau2|chr2 (80375526-80376392)
               

               
               751-1605, gnl|Hg17|chr1 (25578312-25579441)

Aligned organism(s): 15 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


               
               1-366, gnl|bosTau2|chr2 (80374984-80375335)
               

               
               1-366, gnl|Hg17|chr1 (25577746-25578122)
               


               
               372-592, gnl|bosTau2|chr2 (80375369-80375589)
               

               
               372-592, gnl|canFam2|chr2 (77233214-77232984)
               

               
               372-592, gnl|dasNov1|scaffold_28878 (9261-9021)
               

               
               372-592, gnl|echTel1|scaffold_323857 (4440-4207)
               

               
               372-592, gnl|hg17|chr1 (25578044-25578319)
               

               
               372-592, gnl|loxAfr1|scaffold_414 (117991-118245)
               

               
               372-592, gnl|mm7|chr4 (134125161-134124930)
               

               
               372-592, gnl|monDom2|scaffold_91 (2568581-2568786)
               

               
               372-592, gnl|panTro1|chr1 (26258894-26259169)
               

               
               372-592, gnl|rheMac2|chr1 (28170434-28170707)
               

               
               372-592, gnl|rn3|chr5 (153516529-153516293)
               


               
               751-1605, gnl|bosTau2|chr2 (80375526-80376392)
               

               
               751-1605, gnl|Hg17|chr1 (25578312-25579441)

Expressed library(ies): 6 entry(ies)

More info

Expressed library(ies): 6 entry(ies)

Help | Less info


               
               mcp (0.170648)
               

               
               cag (0.151194)
               

               
               lnt (0.142308)
               

               
               nmm (0.132802)
               

               
               sug (0.127291)
               

               
               cty (0.10408)

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


               
               mcp (0.170648)
               

               
               cag (0.151194)
               

               
               lnt (0.142308)
               

               
               nmm (0.132802)
               

               
               sug (0.127291)
               

               
               cty (0.10408)

	116-181, BP137737 full-length enriched swine cDNA library, adult liver Sus (dbj\|BP137737.1\|), blast E-value=7e-28, identity=100%
	116-181, BP139868 full-length enriched swine cDNA library, adult liver Sus (dbj\|BP139868.1\|), blast E-value=7e-28, identity=100%
	89-181, BP140279 full-length enriched swine cDNA library, adult liver Sus (dbj\|BP140279.1\|), blast E-value=6.02558e-44, identity=100%
	113-181, BP450979 full-length enriched swine cDNA library, adult liver Sus (dbj\|BP450979.1\|), blast E-value=1e-29, identity=100%
	68-181, BP457836 full-length enriched swine cDNA library, adult ovary Sus (dbj\|BP457836.1\|), blast E-value=0, identity=100%
	68-181, CJ026669 full-length enriched swine cDNA library, adult trachea Sus (dbj\|CJ026669.1\|), blast E-value=0, identity=99.12%

	1-366, gnl\|bosTau2\|chr2 (80374984-80375335)
	1-366, gnl\|Hg17\|chr1 (25577746-25578122)

	372-592, gnl\|bosTau2\|chr2 (80375369-80375589)
	372-592, gnl\|canFam2\|chr2 (77233214-77232984)
	372-592, gnl\|dasNov1\|scaffold_28878 (9261-9021)
	372-592, gnl\|echTel1\|scaffold_323857 (4440-4207)
	372-592, gnl\|hg17\|chr1 (25578044-25578319)
	372-592, gnl\|loxAfr1\|scaffold_414 (117991-118245)
	372-592, gnl\|mm7\|chr4 (134125161-134124930)
	372-592, gnl\|monDom2\|scaffold_91 (2568581-2568786)
	372-592, gnl\|panTro1\|chr1 (26258894-26259169)
	372-592, gnl\|rheMac2\|chr1 (28170434-28170707)
	372-592, gnl\|rn3\|chr5 (153516529-153516293)

	751-1605, gnl\|bosTau2\|chr2 (80375526-80376392)
	751-1605, gnl\|Hg17\|chr1 (25578312-25579441)

	mcp (0.170648)
	cag (0.151194)
	lnt (0.142308)
	nmm (0.132802)
	sug (0.127291)
	cty (0.10408)