Non-Coding RNA Search

Ss1.1-reep03c_j9.5

Sequence:


               
               AAGGGGCTTCACGGGCCTTACCCCTTTGGCCAGTCTTATAACAGGTATCAGCAAGAAGAA
AAATTAACAAAAGACAGAAGGCTTGATTTTGGGGGGGAAGAGCAAGGGGTTCCTCTGGAT
TGCAGACCACATCGCATGGACCCCTGGCTCTGACCCCCATCCTGGAAGAAGAGGAAGAAG
CAGAACAGACTAGTTTTGAGTAAACTCAGTATGCATGTGTGGATGCTGAACCCAGGAATG
GTGTTGAGGCTACCAAGAAGAAATCCATGCAGCCACTTTGGGTTTTGTTTATTAGGTGTC
AGTCTCTAACAAGTGGTTAGGTCACTCGGGAAGGAAAAAAAGTTTTAAATGGGGGAAAAA
AAAGCCATCTTTTTAAGCAAAAATTATTTTGCCTACAGACAGGTTGTAGTTTTGAGCACA
TGTTAATTTTTTCCCCTCTTTCCCCACCTTTATTTTTTTATATAAGGAATAACATACTCT
TTATAGAATAGCTGCTTGCTCTGGAAGCAATTCAGGTTAAAAGCTGGCGGGGCATGTTTG
GGGACTCTGCGGGCCAGTGCCATTGGAGGACATCTGCCGTCCCACAGGACTCCACAAGTC
TCTGACCCCATTTGTTTTTAATGGCATCAGCCAATGAATTATCACCCTTTTCCTCTTCTT
TTCTCTTTAATCTTCTGTTGATTCACACCTTTGGCATTTGTATTCGCCAGCCCTGTGGCT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AAGGGGCTTCACGGGCCTTACCCCTTTGGCCAGTCTTATAACAGGTATCAGCAAGAAGAA
AAATTAACAAAAGACAGAAGGCTTGATTTTGGGGGGGAAGAGCAAGGGGTTCCTCTGGAT
TGCAGACCACATCGCATGGACCCCTGGCTCTGACCCCCATCCTGGAAGAAGAGGAAGAAG
CAGAACAGACTAGTTTTGAGTAAACTCAGTATGCATGTGTGGATGCTGAACCCAGGAATG
GTGTTGAGGCTACCAAGAAGAAATCCATGCAGCCACTTTGGGTTTTGTTTATTAGGTGTC
AGTCTCTAACAAGTGGTTAGGTCACTCGGGAAGGAAAAAAAGTTTTAAATGGGGGAAAAA
AAAGCCATCTTTTTAAGCAAAAATTATTTTGCCTACAGACAGGTTGTAGTTTTGAGCACA
TGTTAATTTTTTCCCCTCTTTCCCCACCTTTATTTTTTTATATAAGGAATAACATACTCT
TTATAGAATAGCTGCTTGCTCTGGAAGCAATTCAGGTTAAAAGCTGGCGGGGCATGTTTG
GGGACTCTGCGGGCCAGTGCCATTGGAGGACATCTGCCGTCCCACAGGACTCCACAAGTC
TCTGACCCCATTTGTTTTTAATGGCATCAGCCAATGAATTATCACCCTTTTCCTCTTCTT
TTCTCTTTAATCTTCTGTTGATTCACACCTTTGGCATTTGTATTCGCCAGCCCTGTGGCT

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

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

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               2-193, - strand, RNAz p=0.83477
               

               
               11-107, - strand, RNAz p=0.54942
               

               
               292-385, - strand, RNAz p=0.740452
               

               
               347-464, + strand, RNAz p=0.999346

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


               
               2-193, - strand, RNAz p=0.83477
               

               
               11-107, - strand, RNAz p=0.54942
               

               
               292-385, - strand, RNAz p=0.740452
               

               
               347-464, + strand, RNAz p=0.999346

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               364-452, BP156372 full-length enriched swine cDNA library, adult peripheral 
(dbj|BP156372.1|), blast E-value=9.99967e-42, identity=100% 
               

               
               364-452, DB139946 THYMU3 Homo sapiens cDNA clone THYMU3012750 5', mRNA 
(dbj|DB139946.1|), blast E-value=4e-32, identity=95.51% 
               

               
               364-452, DB147010 THYMU3 Homo sapiens cDNA clone THYMU3022485 5', mRNA 
(dbj|DB147010.1|), blast E-value=4e-32, identity=95.51% 
               

               
               364-452, DB330886 SKMUS2 Homo sapiens cDNA clone SKMUS2000343 3', mRNA 
(dbj|DB330886.1|), blast E-value=4e-32, identity=95.51% 
               

               
               364-452, DB484234 RIKEN full-length enriched human cDNA library, 
(dbj|DB484234.1|), blast E-value=4e-32, identity=95.51% 
               

               
               364-452, DB788223 full-length enriched swine cDNA library, adult adrenal 
(dbj|DB788223.1|), blast E-value=9.99967e-42, identity=100%

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


               
               364-452, BP156372 full-length enriched swine cDNA library, adult peripheral 
(dbj|BP156372.1|), blast E-value=9.99967e-42, identity=100% 
               

               
               364-452, DB139946 THYMU3 Homo sapiens cDNA clone THYMU3012750 5', mRNA 
(dbj|DB139946.1|), blast E-value=4e-32, identity=95.51% 
               

               
               364-452, DB147010 THYMU3 Homo sapiens cDNA clone THYMU3022485 5', mRNA 
(dbj|DB147010.1|), blast E-value=4e-32, identity=95.51% 
               

               
               364-452, DB330886 SKMUS2 Homo sapiens cDNA clone SKMUS2000343 3', mRNA 
(dbj|DB330886.1|), blast E-value=4e-32, identity=95.51% 
               

               
               364-452, DB484234 RIKEN full-length enriched human cDNA library, 
(dbj|DB484234.1|), blast E-value=4e-32, identity=95.51% 
               

               
               364-452, DB788223 full-length enriched swine cDNA library, adult adrenal 
(dbj|DB788223.1|), blast E-value=9.99967e-42, identity=100%

Homologous human UTR: 2 entry(ies)

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Homologous human UTR: 2 entry(ies)

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               3' of BC075810, +
               

               
               5' of BC075810, +

Homologous human UTR: 2 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of BC075810, +
               

               
               5' of BC075810, +

Aligned organism(s): 14 entry(ies)

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Aligned organism(s): 14 entry(ies)

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               2-464, gnl|bosTau2|chr23 (6789531-6789070)
               

               
               2-464, gnl|canFam2|chr12 (6865970-6866581)
               

               
               2-464, gnl|echTel1|scaffold_308302 (4893-4335)
               

               
               2-464, gnl|galGal2|chr26 (2901905-2901325)
               

               
               2-464, gnl|hg17|chr6 (34665801-34666381)
               

               
               2-464, gnl|Hg17|chr6 (34666357-34665900)
               

               
               2-464, gnl|loxAfr1|scaffold_86306 (5980-5403)
               

               
               2-464, gnl|mm7|chr17 (25939083-25939652)
               

               
               2-464, gnl|Mm7|chr17 (25939628-25939188)
               

               
               2-464, gnl|monDom2|scaffold_42 (12744925-12744208)
               

               
               2-464, gnl|oryCun1|scaffold_200950 (47192-47762)
               

               
               2-464, gnl|panTro1|chr5 (35117754-35118334)
               

               
               2-464, gnl|rheMac2|chr4 (34307780-34308359)
               

               
               2-464, gnl|rn3|chr20 (5968294-5968863)

Aligned organism(s): 14 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


               
               2-464, gnl|bosTau2|chr23 (6789531-6789070)
               

               
               2-464, gnl|canFam2|chr12 (6865970-6866581)
               

               
               2-464, gnl|echTel1|scaffold_308302 (4893-4335)
               

               
               2-464, gnl|galGal2|chr26 (2901905-2901325)
               

               
               2-464, gnl|hg17|chr6 (34665801-34666381)
               

               
               2-464, gnl|Hg17|chr6 (34666357-34665900)
               

               
               2-464, gnl|loxAfr1|scaffold_86306 (5980-5403)
               

               
               2-464, gnl|mm7|chr17 (25939083-25939652)
               

               
               2-464, gnl|Mm7|chr17 (25939628-25939188)
               

               
               2-464, gnl|monDom2|scaffold_42 (12744925-12744208)
               

               
               2-464, gnl|oryCun1|scaffold_200950 (47192-47762)
               

               
               2-464, gnl|panTro1|chr5 (35117754-35118334)
               

               
               2-464, gnl|rheMac2|chr4 (34307780-34308359)
               

               
               2-464, gnl|rn3|chr20 (5968294-5968863)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               eep (0.122564)

Expressed library(ies): 1 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


               
               eep (0.122564)

	2-193, - strand, RNAz p=0.83477
	11-107, - strand, RNAz p=0.54942
	292-385, - strand, RNAz p=0.740452
	347-464, + strand, RNAz p=0.999346

	364-452, BP156372 full-length enriched swine cDNA library, adult peripheral (dbj\|BP156372.1\|), blast E-value=9.99967e-42, identity=100%
	364-452, DB139946 THYMU3 Homo sapiens cDNA clone THYMU3012750 5', mRNA (dbj\|DB139946.1\|), blast E-value=4e-32, identity=95.51%
	364-452, DB147010 THYMU3 Homo sapiens cDNA clone THYMU3022485 5', mRNA (dbj\|DB147010.1\|), blast E-value=4e-32, identity=95.51%
	364-452, DB330886 SKMUS2 Homo sapiens cDNA clone SKMUS2000343 3', mRNA (dbj\|DB330886.1\|), blast E-value=4e-32, identity=95.51%
	364-452, DB484234 RIKEN full-length enriched human cDNA library, (dbj\|DB484234.1\|), blast E-value=4e-32, identity=95.51%
	364-452, DB788223 full-length enriched swine cDNA library, adult adrenal (dbj\|DB788223.1\|), blast E-value=9.99967e-42, identity=100%

	2-464, gnl\|bosTau2\|chr23 (6789531-6789070)
	2-464, gnl\|canFam2\|chr12 (6865970-6866581)
	2-464, gnl\|echTel1\|scaffold_308302 (4893-4335)
	2-464, gnl\|galGal2\|chr26 (2901905-2901325)
	2-464, gnl\|hg17\|chr6 (34665801-34666381)
	2-464, gnl\|Hg17\|chr6 (34666357-34665900)
	2-464, gnl\|loxAfr1\|scaffold_86306 (5980-5403)
	2-464, gnl\|mm7\|chr17 (25939083-25939652)
	2-464, gnl\|Mm7\|chr17 (25939628-25939188)
	2-464, gnl\|monDom2\|scaffold_42 (12744925-12744208)
	2-464, gnl\|oryCun1\|scaffold_200950 (47192-47762)
	2-464, gnl\|panTro1\|chr5 (35117754-35118334)
	2-464, gnl\|rheMac2\|chr4 (34307780-34308359)
	2-464, gnl\|rn3\|chr20 (5968294-5968863)