Non-Coding RNA Search

Ss1.1-mA2-MI-P-A2-aey-c-08-1-UM.s1.3

Sequence:


               
               ATAGAAACCGCAGCTGAGGCAGCAGTCACTGTTGGTGCCGTCACCCGGCTGAGTGTATAA
CCCTAAGCTCACTCGCCGTGGGTGCCTCCTCGGTTCCCGGGGGGCTCCGGCAGCCCTGAG
GGGCAAAGCGGCAGGACGCCTTTCTTCAGAGAAGAGGCGACGTCGCAGCCCCGGATGCGG
CCAGAGGGCGCGGGAATGGAGCTTGGCGGCTGCGAGGAGAGCTTGCCGGAGGAGAGCAGG
AGGGAGCACTGGCAGTTGCTGGGTAATTTGAAGACTACTGTGGAGGGTTTAGTATCAGCC
AATAGCCCCAACGTCTGGTCCAAGTATGGTGGCCTGGAAAGGCTTTGTAGGGACATGCAG
AGCATCCTCTATCATGGGCTCATCCATGACCAGGTGTGTTGCCGCCAGACTGACTACTGG
CAATTTGTGAAAGACATCCGCTGGCTCAGCCCCCACTCAGCCCTTCACGTGGAAAAGTTC
ATCAACTTGCATGAGAGCAGCCAGAGCAGCACTGATGGCGTGAGCGAGCGTGCCGTGGCA
GAGCTGTGGCTGCAGCATAGTTTGCAGTGCCATTGTCTCTCAGCCCAGCTCCGACCTCTA
CTGGGGGATAGACAGTATATCAGAAAATTCTACACAGGTAGGTGGAGGTCACCCCAGCAA
GGACTGGTGCATGTACTTCCTCATTCTCTTCCTCTTCACTCTTCCTTTATAGATTCACTC
TTATCCCAGGGTCTCCTACTTTCCCTTGATGCCACAGAGATTCTAATCAGAAACATGTGT
TTGTTCTTCTCTCTAACCTTCTATGTAAACACAGTCACACTTTACGCTAAGGTATTCACT
GCTTCCATACACACAAATCAATAAGAACAACTACTATTGGAGTTCCTGTCATGGCTCAGT
GGTTAACAAACCCAACTAGGATCCATGAGGACACGGATTCGATCCCTGGCCTCACTCAGT
GAGTTAAGGATCTGGCGTTGCCATGAGCTGTGGTATAGGTCACAGACGTGACTCGGAGCC
CACATTGCTGTGGCTGTGGCCAGCAGCTGTAGCTCTGATTAGACACCTAGCCTGGGAACC
TCCACATGCCTCGGTGCAGCCCTAAAAAGACAGACAGACAGACAGACAGAAAGAAAGAAA
GAAAGAAAGAAAGAAAGAAAAGAAAGAAAGAGAGAAAAGAATAACTACTATTTACTCAGT
TTCCTATGTTCCAATTACTGTTATGTATTTTTTATACATATATGTTGAGTAGCAGTCCTG
AGAGTTGGGTATTAATATTCTTGTTTTCTAATCAGGAAAGCAGAGTTCAAGCAGGTCAGG
TAATTTGGCCAAAGTCACTCAGAACCAGAATTCAAATATGGATCCTTGAAGCCTCTTGTC
ATGGCTTGTCTGCTATACTGCACATTAATTAACCTCTTCTCAACTTTGTCTCTAGTTCCT
TTCTGTCCACAGGGTATGATTCACCTCAAGTCACTTTTATCTTTTCCCTCTCTCCTTCCC
TGAGCTTCTCCCAAGGCCTTACAGGGAGGCTAAAGTTCTCCCTACTGGTCTCCATCATTG
TGATAGTTTTCTCTCCTCAGATACTGCTTTCCTGCTAAGCGACGCCCATGTCACAGCCAT
GCTCCAGTGCCTAGAAGCAGTGGAACAGAACAACCCTCGTCTCCTGGCTCAGATTGATGC
ATCTATGGTAAAAGGGTCAAGGGAGTATCTGTATCTATATTCTGGCCTCACCATGATGTA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ATAGAAACCGCAGCTGAGGCAGCAGTCACTGTTGGTGCCGTCACCCGGCTGAGTGTATAA
CCCTAAGCTCACTCGCCGTGGGTGCCTCCTCGGTTCCCGGGGGGCTCCGGCAGCCCTGAG
GGGCAAAGCGGCAGGACGCCTTTCTTCAGAGAAGAGGCGACGTCGCAGCCCCGGATGCGG
CCAGAGGGCGCGGGAATGGAGCTTGGCGGCTGCGAGGAGAGCTTGCCGGAGGAGAGCAGG
AGGGAGCACTGGCAGTTGCTGGGTAATTTGAAGACTACTGTGGAGGGTTTAGTATCAGCC
AATAGCCCCAACGTCTGGTCCAAGTATGGTGGCCTGGAAAGGCTTTGTAGGGACATGCAG
AGCATCCTCTATCATGGGCTCATCCATGACCAGGTGTGTTGCCGCCAGACTGACTACTGG
CAATTTGTGAAAGACATCCGCTGGCTCAGCCCCCACTCAGCCCTTCACGTGGAAAAGTTC
ATCAACTTGCATGAGAGCAGCCAGAGCAGCACTGATGGCGTGAGCGAGCGTGCCGTGGCA
GAGCTGTGGCTGCAGCATAGTTTGCAGTGCCATTGTCTCTCAGCCCAGCTCCGACCTCTA
CTGGGGGATAGACAGTATATCAGAAAATTCTACACAGGTAGGTGGAGGTCACCCCAGCAA
GGACTGGTGCATGTACTTCCTCATTCTCTTCCTCTTCACTCTTCCTTTATAGATTCACTC
TTATCCCAGGGTCTCCTACTTTCCCTTGATGCCACAGAGATTCTAATCAGAAACATGTGT
TTGTTCTTCTCTCTAACCTTCTATGTAAACACAGTCACACTTTACGCTAAGGTATTCACT
GCTTCCATACACACAAATCAATAAGAACAACTACTATTGGAGTTCCTGTCATGGCTCAGT
GGTTAACAAACCCAACTAGGATCCATGAGGACACGGATTCGATCCCTGGCCTCACTCAGT
GAGTTAAGGATCTGGCGTTGCCATGAGCTGTGGTATAGGTCACAGACGTGACTCGGAGCC
CACATTGCTGTGGCTGTGGCCAGCAGCTGTAGCTCTGATTAGACACCTAGCCTGGGAACC
TCCACATGCCTCGGTGCAGCCCTAAAAAGACAGACAGACAGACAGACAGAAAGAAAGAAA
GAAAGAAAGAAAGAAAGAAAAGAAAGAAAGAGAGAAAAGAATAACTACTATTTACTCAGT
TTCCTATGTTCCAATTACTGTTATGTATTTTTTATACATATATGTTGAGTAGCAGTCCTG
AGAGTTGGGTATTAATATTCTTGTTTTCTAATCAGGAAAGCAGAGTTCAAGCAGGTCAGG
TAATTTGGCCAAAGTCACTCAGAACCAGAATTCAAATATGGATCCTTGAAGCCTCTTGTC
ATGGCTTGTCTGCTATACTGCACATTAATTAACCTCTTCTCAACTTTGTCTCTAGTTCCT
TTCTGTCCACAGGGTATGATTCACCTCAAGTCACTTTTATCTTTTCCCTCTCTCCTTCCC
TGAGCTTCTCCCAAGGCCTTACAGGGAGGCTAAAGTTCTCCCTACTGGTCTCCATCATTG
TGATAGTTTTCTCTCCTCAGATACTGCTTTCCTGCTAAGCGACGCCCATGTCACAGCCAT
GCTCCAGTGCCTAGAAGCAGTGGAACAGAACAACCCTCGTCTCCTGGCTCAGATTGATGC
ATCTATGGTAAAAGGGTCAAGGGAGTATCTGTATCTATATTCTGGCCTCACCATGATGTA

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

More info

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

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               82-200, + strand, RNAz p=0.887275
               

               
               476-635, - strand, RNAz p=0.569451
               

               
               1426-1579, - strand, RNAz p=0.99821

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


               
               82-200, + strand, RNAz p=0.887275
               

               
               476-635, - strand, RNAz p=0.569451
               

               
               1426-1579, - strand, RNAz p=0.99821

Similar Transcript(s): 1 entry(ies)

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Similar Transcript(s): 1 entry(ies)

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               1426-1579, DB814226 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB814226.1|), blast E-value=0, identity=98.7%

Similar Transcript(s): 1 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


               
               1426-1579, DB814226 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB814226.1|), blast E-value=0, identity=98.7%

Aligned organism(s): 19 entry(ies)

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Aligned organism(s): 19 entry(ies)

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               3-240, gnl|bosTau2|chr1 (42517046-42516814)
               

               
               3-240, gnl|canFam2|chr33 (31998177-31997727)
               

               
               3-240, gnl|dasNov1|scaffold_16981 (32675-32180)
               

               
               3-240, gnl|echTel1|scaffold_253111 (7427-6915)
               

               
               3-240, gnl|hg17|chr3 (198951539-198952054)
               

               
               3-240, gnl|Hg17|chr3 (198952074-198951835)
               

               
               3-240, gnl|loxAfr1|scaffold_126807 (4926-4412)
               

               
               3-240, gnl|mm7|chr16 (32542324-32542835)
               

               
               3-240, gnl|Mm7|chr16 (32542854-32542616)
               

               
               3-240, gnl|monDom2|scaffold_24 (25235146-25234708)
               

               
               3-240, gnl|oryCun1|scaffold_212580 (72144-71637)
               

               
               3-240, gnl|panTro1|chr2 (203232577-203233092)
               

               
               3-240, gnl|rn3|chr11 (69793429-69792917)
               

               
               3-240, gnl|xenTro1|scaffold_67 (1610911-1610370)
               


               
               476-877, gnl|bosTau2|chr1 (42494396-42493995)
               

               
               476-877, gnl|Hg17|chr3 (198919884-198919184)
               

               
               476-877, gnl|Mm7|chr16 (32522515-32522153)
               


               
               1158-1729, gnl|bosTau2|chr1 (42493808-42493227)
               

               
               1158-1729, gnl|Hg17|chr3 (198919183-198918689)

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


               
               3-240, gnl|bosTau2|chr1 (42517046-42516814)
               

               
               3-240, gnl|canFam2|chr33 (31998177-31997727)
               

               
               3-240, gnl|dasNov1|scaffold_16981 (32675-32180)
               

               
               3-240, gnl|echTel1|scaffold_253111 (7427-6915)
               

               
               3-240, gnl|hg17|chr3 (198951539-198952054)
               

               
               3-240, gnl|Hg17|chr3 (198952074-198951835)
               

               
               3-240, gnl|loxAfr1|scaffold_126807 (4926-4412)
               

               
               3-240, gnl|mm7|chr16 (32542324-32542835)
               

               
               3-240, gnl|Mm7|chr16 (32542854-32542616)
               

               
               3-240, gnl|monDom2|scaffold_24 (25235146-25234708)
               

               
               3-240, gnl|oryCun1|scaffold_212580 (72144-71637)
               

               
               3-240, gnl|panTro1|chr2 (203232577-203233092)
               

               
               3-240, gnl|rn3|chr11 (69793429-69792917)
               

               
               3-240, gnl|xenTro1|scaffold_67 (1610911-1610370)
               


               
               476-877, gnl|bosTau2|chr1 (42494396-42493995)
               

               
               476-877, gnl|Hg17|chr3 (198919884-198919184)
               

               
               476-877, gnl|Mm7|chr16 (32522515-32522153)
               


               
               1158-1729, gnl|bosTau2|chr1 (42493808-42493227)
               

               
               1158-1729, gnl|Hg17|chr3 (198919183-198918689)

Expressed library(ies): 1 entry(ies)

More info

Expressed library(ies): 1 entry(ies)

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               ssp (0.13552)

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


               
               ssp (0.13552)

	82-200, + strand, RNAz p=0.887275
	476-635, - strand, RNAz p=0.569451
	1426-1579, - strand, RNAz p=0.99821

	3-240, gnl\|bosTau2\|chr1 (42517046-42516814)
	3-240, gnl\|canFam2\|chr33 (31998177-31997727)
	3-240, gnl\|dasNov1\|scaffold_16981 (32675-32180)
	3-240, gnl\|echTel1\|scaffold_253111 (7427-6915)
	3-240, gnl\|hg17\|chr3 (198951539-198952054)
	3-240, gnl\|Hg17\|chr3 (198952074-198951835)
	3-240, gnl\|loxAfr1\|scaffold_126807 (4926-4412)
	3-240, gnl\|mm7\|chr16 (32542324-32542835)
	3-240, gnl\|Mm7\|chr16 (32542854-32542616)
	3-240, gnl\|monDom2\|scaffold_24 (25235146-25234708)
	3-240, gnl\|oryCun1\|scaffold_212580 (72144-71637)
	3-240, gnl\|panTro1\|chr2 (203232577-203233092)
	3-240, gnl\|rn3\|chr11 (69793429-69792917)
	3-240, gnl\|xenTro1\|scaffold_67 (1610911-1610370)

	476-877, gnl\|bosTau2\|chr1 (42494396-42493995)
	476-877, gnl\|Hg17\|chr3 (198919884-198919184)
	476-877, gnl\|Mm7\|chr16 (32522515-32522153)

	1158-1729, gnl\|bosTau2\|chr1 (42493808-42493227)
	1158-1729, gnl\|Hg17\|chr3 (198919183-198918689)