Non-Coding RNA Search

Ss1.1-reep23c_g9.5

Sequence:


               
               GCTCCAAAGTACAGACCTTTCCTAGCATCCTTCACCTACACAACTGATAATCAGTCAAAC
AAAGAAAATAAAATGACAGTGGAAAAGCTCTATAAATTGTCAGTGGACATCAGGAAAATT
CGAAGATTAAAAGGATGGGTACTTCTAGAGGATGAAACCTATGTTGAAGAAATTGCAGAT
ATTTTACAACAACTAGGTGCCAATCAGACTGCTGTAGCCAGTATCTTGGAACGCTGCCCA
GAAGCAATTATCTGCAGTCCAACTGCTATTAACACACAGAGAGAACTCTGGCAATTGGTC
TGCAAAAACAAGGAAGAGTTAGTCAAGTTAATAGAACAGTTTCCAGAATCTTTCTTTACT
GTTAAAGACCAGGAAAACCAGAAGTTGAATGTTCAGTTCTTTCAAGAGTTGGGACTCAAA
AATGTGGTCATTAGCAGATTTTTGACAACTGCATCTAATATTTTTCATAATCCACTTGAG
AAAAATAAGCAAATGATAAAGATTCTCCAAGAGAGTTACCTAAATTTAGGTGGCTCTGAG
GCCAATATGAAAGTTTGGCTACTAAAATTATTAAGCCAAAACCCATTTATTTTGTTAAAG
TCCTCTGCAGCTATAAAGGAAACACTAGAATTTCTTCAGGAGCAAGGTTTCACAAACTTT
GAAATTCTCCAGCTTCTGTCCAAACTCAAAGGATTTCTTTTTCAACTTTGCCCAAGAAGT
ATACAGAACAGTATGTCCTTCACGGAAAATGCTTTTAAATGTACTGATCATGACCTAAAG
CAATTGGTTTTGAAGTGTCCCGCCCTTTTATATTACTCTGTTGCAGTTTTGGAAGAGAGA
ATTCAGGGATTATTGAAAGAAGGAATTTCCATAACTCAGATAAGAGAGACACCAATGGTT
CTTGAATTAACGCCACAGATAGTACAATACAGGATAAGAAAACTGAATTCCTTAGGCTAT
AGAGTAAAGGATGGACATCTAGCACATTTAAATGGAACAAAAAAAGAGTTTGAGGAGAAC
TTTGGTAAAATTCAGGCAAAAAAAGGCCGGCCATTA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GCTCCAAAGTACAGACCTTTCCTAGCATCCTTCACCTACACAACTGATAATCAGTCAAAC
AAAGAAAATAAAATGACAGTGGAAAAGCTCTATAAATTGTCAGTGGACATCAGGAAAATT
CGAAGATTAAAAGGATGGGTACTTCTAGAGGATGAAACCTATGTTGAAGAAATTGCAGAT
ATTTTACAACAACTAGGTGCCAATCAGACTGCTGTAGCCAGTATCTTGGAACGCTGCCCA
GAAGCAATTATCTGCAGTCCAACTGCTATTAACACACAGAGAGAACTCTGGCAATTGGTC
TGCAAAAACAAGGAAGAGTTAGTCAAGTTAATAGAACAGTTTCCAGAATCTTTCTTTACT
GTTAAAGACCAGGAAAACCAGAAGTTGAATGTTCAGTTCTTTCAAGAGTTGGGACTCAAA
AATGTGGTCATTAGCAGATTTTTGACAACTGCATCTAATATTTTTCATAATCCACTTGAG
AAAAATAAGCAAATGATAAAGATTCTCCAAGAGAGTTACCTAAATTTAGGTGGCTCTGAG
GCCAATATGAAAGTTTGGCTACTAAAATTATTAAGCCAAAACCCATTTATTTTGTTAAAG
TCCTCTGCAGCTATAAAGGAAACACTAGAATTTCTTCAGGAGCAAGGTTTCACAAACTTT
GAAATTCTCCAGCTTCTGTCCAAACTCAAAGGATTTCTTTTTCAACTTTGCCCAAGAAGT
ATACAGAACAGTATGTCCTTCACGGAAAATGCTTTTAAATGTACTGATCATGACCTAAAG
CAATTGGTTTTGAAGTGTCCCGCCCTTTTATATTACTCTGTTGCAGTTTTGGAAGAGAGA
ATTCAGGGATTATTGAAAGAAGGAATTTCCATAACTCAGATAAGAGAGACACCAATGGTT
CTTGAATTAACGCCACAGATAGTACAATACAGGATAAGAAAACTGAATTCCTTAGGCTAT
AGAGTAAAGGATGGACATCTAGCACATTTAAATGGAACAAAAAAAGAGTTTGAGGAGAAC
TTTGGTAAAATTCAGGCAAAAAAAGGCCGGCCATTA

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               gi|55731892|emb|CAH92655.1|

Coded protein: 1 entry(ies)

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Protein identifier


               
               gi|55731892|emb|CAH92655.1|

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

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

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               240-359, - strand, RNAz p=0.568791
               

               
               480-599, - strand, RNAz p=0.946725
               

               
               790-949, + strand, RNAz p=0.969467
               

               
               840-959, + strand, RNAz p=0.827518

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


               
               240-359, - strand, RNAz p=0.568791
               

               
               480-599, - strand, RNAz p=0.946725
               

               
               790-949, + strand, RNAz p=0.969467
               

               
               840-959, + strand, RNAz p=0.827518

Aligned organism(s): 19 entry(ies)

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Aligned organism(s): 19 entry(ies)

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               1-1056, gnl|bosTau2|chr5 (40850957-40852012)
               

               
               1-1056, gnl|canFam2|chr10 (34918940-34918216)
               

               
               1-1056, gnl|danRer3|chr18 (11457474-11456750)
               

               
               1-1056, gnl|dasNov1|scaffold_18904 (39901-40625)
               

               
               1-1056, gnl|echTel1|scaffold_316942 (2030-2754)
               

               
               1-1056, gnl|fr1|chrUn (135640948-135641672)
               

               
               1-1056, gnl|galGal2|chr1 (50344166-50343442)
               

               
               1-1056, gnl|hg17|chr12 (105873803-105874527)
               

               
               1-1056, gnl|Hg17|chr12 (105874893-105873838)
               

               
               1-1056, gnl|loxAfr1|scaffold_57024 (4119-4843)
               

               
               1-1056, gnl|mm7|chr10 (84660966-84661690)
               

               
               1-1056, gnl|Mm7|chr10 (84662056-84661001)
               

               
               1-1056, gnl|monDom2|scaffold_34 (6494802-6494078)
               

               
               1-1056, gnl|oryCun1|scaffold_170536 (5269-4545)
               

               
               1-1056, gnl|panTro1|chr10 (108381656-108382380)
               

               
               1-1056, gnl|rheMac2|chr11 (108049327-108050051)
               

               
               1-1056, gnl|rn3|chr7 (20743598-20742874)
               

               
               1-1056, gnl|tetNig1|chr13 (6416195-6415471)
               

               
               1-1056, gnl|xenTro1|scaffold_1171 (69635-70359)

Aligned organism(s): 19 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


               
               1-1056, gnl|bosTau2|chr5 (40850957-40852012)
               

               
               1-1056, gnl|canFam2|chr10 (34918940-34918216)
               

               
               1-1056, gnl|danRer3|chr18 (11457474-11456750)
               

               
               1-1056, gnl|dasNov1|scaffold_18904 (39901-40625)
               

               
               1-1056, gnl|echTel1|scaffold_316942 (2030-2754)
               

               
               1-1056, gnl|fr1|chrUn (135640948-135641672)
               

               
               1-1056, gnl|galGal2|chr1 (50344166-50343442)
               

               
               1-1056, gnl|hg17|chr12 (105873803-105874527)
               

               
               1-1056, gnl|Hg17|chr12 (105874893-105873838)
               

               
               1-1056, gnl|loxAfr1|scaffold_57024 (4119-4843)
               

               
               1-1056, gnl|mm7|chr10 (84660966-84661690)
               

               
               1-1056, gnl|Mm7|chr10 (84662056-84661001)
               

               
               1-1056, gnl|monDom2|scaffold_34 (6494802-6494078)
               

               
               1-1056, gnl|oryCun1|scaffold_170536 (5269-4545)
               

               
               1-1056, gnl|panTro1|chr10 (108381656-108382380)
               

               
               1-1056, gnl|rheMac2|chr11 (108049327-108050051)
               

               
               1-1056, gnl|rn3|chr7 (20743598-20742874)
               

               
               1-1056, gnl|tetNig1|chr13 (6416195-6415471)
               

               
               1-1056, gnl|xenTro1|scaffold_1171 (69635-70359)

Expressed library(ies): 3 entry(ies)

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Expressed library(ies): 3 entry(ies)

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               eye (0.170503)
               

               
               tbr (0.154178)
               

               
               eep (0.122564)

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


               
               eye (0.170503)
               

               
               tbr (0.154178)
               

               
               eep (0.122564)

	240-359, - strand, RNAz p=0.568791
	480-599, - strand, RNAz p=0.946725
	790-949, + strand, RNAz p=0.969467
	840-959, + strand, RNAz p=0.827518

	1-1056, gnl\|bosTau2\|chr5 (40850957-40852012)
	1-1056, gnl\|canFam2\|chr10 (34918940-34918216)
	1-1056, gnl\|danRer3\|chr18 (11457474-11456750)
	1-1056, gnl\|dasNov1\|scaffold_18904 (39901-40625)
	1-1056, gnl\|echTel1\|scaffold_316942 (2030-2754)
	1-1056, gnl\|fr1\|chrUn (135640948-135641672)
	1-1056, gnl\|galGal2\|chr1 (50344166-50343442)
	1-1056, gnl\|hg17\|chr12 (105873803-105874527)
	1-1056, gnl\|Hg17\|chr12 (105874893-105873838)
	1-1056, gnl\|loxAfr1\|scaffold_57024 (4119-4843)
	1-1056, gnl\|mm7\|chr10 (84660966-84661690)
	1-1056, gnl\|Mm7\|chr10 (84662056-84661001)
	1-1056, gnl\|monDom2\|scaffold_34 (6494802-6494078)
	1-1056, gnl\|oryCun1\|scaffold_170536 (5269-4545)
	1-1056, gnl\|panTro1\|chr10 (108381656-108382380)
	1-1056, gnl\|rheMac2\|chr11 (108049327-108050051)
	1-1056, gnl\|rn3\|chr7 (20743598-20742874)
	1-1056, gnl\|tetNig1\|chr13 (6416195-6415471)
	1-1056, gnl\|xenTro1\|scaffold_1171 (69635-70359)