Non-Coding RNA Search

Ss1.1-rlin13_o4.5

Sequence:


               
               CTTGATGTTCCTGGTATGTGCCAGGAATGCCTGCTGCCCTGACCTCTTGGCAGGCCCTTC
TCTGAGCCCACTAGAGAATCCCCTCAGCTCCAGGACCAAGGGAGTCCAGCCTCTCTGCCA
GTCATCCAGAGTCCCCTCTCAGCTCCTCACCTCCACAGGAGTTGGATGACCAGCTGTCTT
GCTTTGCCCAGGATTCTCTAAGTCTTAGCACTGAAACTCTCTTGTCCTAGGAAACCCCTC
AGTCCCAGGCAAATCAAGACAGCTGATGGCCTTCCACAGGAGTCATCCTGGAGCATCACC
TCTATACCCTTTAAGACCCTTCCTTTTCCTTCTTCAACTGAGTCTTTCTCAAAGCCAAGC
TTTAATTTTTTTTAAAAAATTATGTATATAAAGCTGTTTCAAAATAGTTGCATAAATAGG
ATGTAAAAAAAATTATGTATAATTTGCCAAAAGTAAAGTGTTCAAATTTTAAAGTTACCA
TGTACTGCATGTAGTACTACAACACAAGTCAAGATATAGAACATTTCCATTACCCCTGAA
ATTTCCCTGTACTCCTTCCAGTCAGCCTCCCCCAACACTTAGAAGCTACCCATCAATGTG
ATTTTTTAAAATTGCTCTAGATTCGTTTGGTCATACTGAATGTACTCTTTTGAATCTGGC
TTCTTTCACCCAACACAATGTCTCTGATTCATTCATGTTGTTGTGTGTATCAATAGTTTG
TTCCTTTGTATTACGTGTTACATAGTCCACTGTAAGGATATACCAAAGTTTGTCCAATCT
TCTGTTAATAGACATTTAAATTGTTTCTAGTTTTTG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTTGATGTTCCTGGTATGTGCCAGGAATGCCTGCTGCCCTGACCTCTTGGCAGGCCCTTC
TCTGAGCCCACTAGAGAATCCCCTCAGCTCCAGGACCAAGGGAGTCCAGCCTCTCTGCCA
GTCATCCAGAGTCCCCTCTCAGCTCCTCACCTCCACAGGAGTTGGATGACCAGCTGTCTT
GCTTTGCCCAGGATTCTCTAAGTCTTAGCACTGAAACTCTCTTGTCCTAGGAAACCCCTC
AGTCCCAGGCAAATCAAGACAGCTGATGGCCTTCCACAGGAGTCATCCTGGAGCATCACC
TCTATACCCTTTAAGACCCTTCCTTTTCCTTCTTCAACTGAGTCTTTCTCAAAGCCAAGC
TTTAATTTTTTTTAAAAAATTATGTATATAAAGCTGTTTCAAAATAGTTGCATAAATAGG
ATGTAAAAAAAATTATGTATAATTTGCCAAAAGTAAAGTGTTCAAATTTTAAAGTTACCA
TGTACTGCATGTAGTACTACAACACAAGTCAAGATATAGAACATTTCCATTACCCCTGAA
ATTTCCCTGTACTCCTTCCAGTCAGCCTCCCCCAACACTTAGAAGCTACCCATCAATGTG
ATTTTTTAAAATTGCTCTAGATTCGTTTGGTCATACTGAATGTACTCTTTTGAATCTGGC
TTCTTTCACCCAACACAATGTCTCTGATTCATTCATGTTGTTGTGTGTATCAATAGTTTG
TTCCTTTGTATTACGTGTTACATAGTCCACTGTAAGGATATACCAAAGTTTGTCCAATCT
TCTGTTAATAGACATTTAAATTGTTTCTAGTTTTTG

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

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

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               47-156, - strand, RNAz p=0.951439
               

               
               67-264, - strand, RNAz p=0.990163
               

               
               265-367, - strand, RNAz p=0.516641

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


               
               47-156, - strand, RNAz p=0.951439
               

               
               67-264, - strand, RNAz p=0.990163
               

               
               265-367, - strand, RNAz p=0.516641

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               168-301, - strand, RNAmicro p=0.999946

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


               
               168-301, - strand, RNAmicro p=0.999946

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               148-264, DB806419 full-length enriched swine cDNA library, adult alveolar 
(dbj|DB806419.1|), blast E-value=0, identity=100% 
               

               
               84-254, 1Abo18E12 Bos taurus Abomasum #1 library Bos taurus cDNA, mRNA 
(gb|CB220190.1|), blast E-value=8e-38, identity=87.13% 
               

               
               84-228, 1Abo30E10 Bos taurus Abomasum #1 library Bos taurus cDNA, mRNA 
(gb|CB221120.1|), blast E-value=1e-24, identity=85.52% 
               

               
               154-254, 4085200 BARC 9BOV Bos taurus cDNA clone 9BOV2_G17 3', mRNA sequence 
(gb|CK969565.1|), blast E-value=6e-20, identity=88.12% 
               

               
               84-254, 4109423 BARC 9BOV Bos taurus cDNA clone 9BOV37_H22 5', mRNA 
(gb|CK977958.1|), blast E-value=8e-38, identity=87.13% 
               

               
               152-251, nav20f06.y1 Human pterygium. Unnormalized (nav) Homo sapiens cDNA 
(gb|DR423042.1|), blast E-value=0.0000000000009, identity=86.14%

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


               
               148-264, DB806419 full-length enriched swine cDNA library, adult alveolar 
(dbj|DB806419.1|), blast E-value=0, identity=100% 
               

               
               84-254, 1Abo18E12 Bos taurus Abomasum #1 library Bos taurus cDNA, mRNA 
(gb|CB220190.1|), blast E-value=8e-38, identity=87.13% 
               

               
               84-228, 1Abo30E10 Bos taurus Abomasum #1 library Bos taurus cDNA, mRNA 
(gb|CB221120.1|), blast E-value=1e-24, identity=85.52% 
               

               
               154-254, 4085200 BARC 9BOV Bos taurus cDNA clone 9BOV2_G17 3', mRNA sequence 
(gb|CK969565.1|), blast E-value=6e-20, identity=88.12% 
               

               
               84-254, 4109423 BARC 9BOV Bos taurus cDNA clone 9BOV37_H22 5', mRNA 
(gb|CK977958.1|), blast E-value=8e-38, identity=87.13% 
               

               
               152-251, nav20f06.y1 Human pterygium. Unnormalized (nav) Homo sapiens cDNA 
(gb|DR423042.1|), blast E-value=0.0000000000009, identity=86.14%

Homologous human UTR: 2 entry(ies)

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Homologous human UTR: 2 entry(ies)

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               5' of NM_014080, -
               

               
               5' of NM_014080, -

Homologous human UTR: 2 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_014080, -
               

               
               5' of NM_014080, -

Aligned organism(s): 15 entry(ies)

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Aligned organism(s): 15 entry(ies)

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               28-367, gnl|bosTau2|chr10 (45081809-45082148)
               

               
               28-367, gnl|canFam2|chr30 (14513670-14514709)
               

               
               28-367, gnl|echTel1|scaffold_310519 (48447-47557)
               

               
               28-367, gnl|hg17|chr15 (43172223-43173311)
               

               
               28-367, gnl|Hg17|chr15 (43172890-43172550)
               

               
               28-367, gnl|loxAfr1|scaffold_4343 (61614-60475)
               

               
               28-367, gnl|mm7|chr2 (122020174-122021152)
               

               
               28-367, gnl|Mm7|chr2 (122020770-122020483)
               

               
               28-367, gnl|oryCun1|scaffold_148844 (6676-7701)
               

               
               28-367, gnl|panTro1|chr16 (43119004-43120087)
               

               
               28-367, gnl|rheMac2|chr7 (23445074-23446133)
               

               
               28-367, gnl|rn3|chr3 (108965005-108965905)
               


               
               425-816, gnl|bosTau2|chr10 (45082153-45082550)
               

               
               425-816, gnl|Hg17|chr15 (43172548-43172180)
               

               
               425-816, gnl|Mm7|chr2 (122020482-122020130)

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


               
               28-367, gnl|bosTau2|chr10 (45081809-45082148)
               

               
               28-367, gnl|canFam2|chr30 (14513670-14514709)
               

               
               28-367, gnl|echTel1|scaffold_310519 (48447-47557)
               

               
               28-367, gnl|hg17|chr15 (43172223-43173311)
               

               
               28-367, gnl|Hg17|chr15 (43172890-43172550)
               

               
               28-367, gnl|loxAfr1|scaffold_4343 (61614-60475)
               

               
               28-367, gnl|mm7|chr2 (122020174-122021152)
               

               
               28-367, gnl|Mm7|chr2 (122020770-122020483)
               

               
               28-367, gnl|oryCun1|scaffold_148844 (6676-7701)
               

               
               28-367, gnl|panTro1|chr16 (43119004-43120087)
               

               
               28-367, gnl|rheMac2|chr7 (23445074-23446133)
               

               
               28-367, gnl|rn3|chr3 (108965005-108965905)
               


               
               425-816, gnl|bosTau2|chr10 (45082153-45082550)
               

               
               425-816, gnl|Hg17|chr15 (43172548-43172180)
               

               
               425-816, gnl|Mm7|chr2 (122020482-122020130)

Expressed library(ies): 8 entry(ies)

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Expressed library(ies): 8 entry(ies)

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               lin (1.31043)
               

               
               tra (0.61546)
               

               
               rec (0.346141)
               

               
               cmu (0.186393)
               

               
               sag (0.182715)
               

               
               liv (0.146284)
               

               
               spl (0.143184)
               

               
               ret (0.128733)

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


               
               lin (1.31043)
               

               
               tra (0.61546)
               

               
               rec (0.346141)
               

               
               cmu (0.186393)
               

               
               sag (0.182715)
               

               
               liv (0.146284)
               

               
               spl (0.143184)
               

               
               ret (0.128733)

	47-156, - strand, RNAz p=0.951439
	67-264, - strand, RNAz p=0.990163
	265-367, - strand, RNAz p=0.516641

	148-264, DB806419 full-length enriched swine cDNA library, adult alveolar (dbj\|DB806419.1\|), blast E-value=0, identity=100%
	84-254, 1Abo18E12 Bos taurus Abomasum #1 library Bos taurus cDNA, mRNA (gb\|CB220190.1\|), blast E-value=8e-38, identity=87.13%
	84-228, 1Abo30E10 Bos taurus Abomasum #1 library Bos taurus cDNA, mRNA (gb\|CB221120.1\|), blast E-value=1e-24, identity=85.52%
	154-254, 4085200 BARC 9BOV Bos taurus cDNA clone 9BOV2_G17 3', mRNA sequence (gb\|CK969565.1\|), blast E-value=6e-20, identity=88.12%
	84-254, 4109423 BARC 9BOV Bos taurus cDNA clone 9BOV37_H22 5', mRNA (gb\|CK977958.1\|), blast E-value=8e-38, identity=87.13%
	152-251, nav20f06.y1 Human pterygium. Unnormalized (nav) Homo sapiens cDNA (gb\|DR423042.1\|), blast E-value=0.0000000000009, identity=86.14%

	28-367, gnl\|bosTau2\|chr10 (45081809-45082148)
	28-367, gnl\|canFam2\|chr30 (14513670-14514709)
	28-367, gnl\|echTel1\|scaffold_310519 (48447-47557)
	28-367, gnl\|hg17\|chr15 (43172223-43173311)
	28-367, gnl\|Hg17\|chr15 (43172890-43172550)
	28-367, gnl\|loxAfr1\|scaffold_4343 (61614-60475)
	28-367, gnl\|mm7\|chr2 (122020174-122021152)
	28-367, gnl\|Mm7\|chr2 (122020770-122020483)
	28-367, gnl\|oryCun1\|scaffold_148844 (6676-7701)
	28-367, gnl\|panTro1\|chr16 (43119004-43120087)
	28-367, gnl\|rheMac2\|chr7 (23445074-23446133)
	28-367, gnl\|rn3\|chr3 (108965005-108965905)

	425-816, gnl\|bosTau2\|chr10 (45082153-45082550)
	425-816, gnl\|Hg17\|chr15 (43172548-43172180)
	425-816, gnl\|Mm7\|chr2 (122020482-122020130)

	lin (1.31043)
	tra (0.61546)
	rec (0.346141)
	cmu (0.186393)
	sag (0.182715)
	liv (0.146284)
	spl (0.143184)
	ret (0.128733)