Non-Coding RNA Search

Ss1.1-rnca24b_d7.5

Sequence:


               
               GCTCAGCAAGCCCGGCAACCCCACGGCCCGTCTACCGGAGGGAGCTGCCTGCTGCCACCT
CAGCCCCACTCTTGGGCCTGGGCTTGACTCACCACTGTGGTCCCTGTGCATCAGGAATTG
TCACAACAATTGGGGGTGGTCCTTGAAAGCACTCCTTTTTCTATACCTCTTCTCAAGGCC
ATGTAAGTTCCTCCTCTCTACCTGCCTGGACAAAAGATGCCTGCTCCTGGCCAGCCAGTG
GGCGGCTCAGGGTCTGAAGATATGGCACAGGGACTGAATGGCAACGCCCCCACCCTGTGC
TGAGACAGGAGGTCCTTCTGTCAGCTTTCTCTCCCATCCCTCCTTCACTCAAGGGCCACG
TCCCTGGTTCTGCCTGTCAAAGGCCCCACAGGTGCTATTTGTTGTGCTGGCCCAGGTGTG
GGGCCGCCAAGCTCAGCCTTGGCCTGCCGAGGGTCAGCTGCATGTCAGTTGGTCTTGTCC
CTCCTCTGCAGTGACCTGTTGGTATTAATGCTGGATTCAAACAGTATGTTTTACTCTCCC
AGGCTGGTGGCTGGGGACCTGACCCCTAGCTCCCCATCCTGCCACCTTCGCCCCCGCTTC
CTGCCCCCATGTAAGTCCTCTCGTGTTTTAGTAACTTGCAGTGAGTGACCATACCTGTCC
CTCTGTCGCAGGAACCTGGAGGTAAGGGAAAGATGATGCCGTATTTCCTACTCCTTAGGG
CATGGATCCCCTTCTTTCCCTTATTAGTGTCCTGGGTTCCCGTGGACTCAGGGATTTGTT
GGTTGAGGTTTCCCTGCATATATATATACATATATATATATTTAAATATGCATATATATA
TATTGTACAGAATAAAAATGTTTTATTGAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GCTCAGCAAGCCCGGCAACCCCACGGCCCGTCTACCGGAGGGAGCTGCCTGCTGCCACCT
CAGCCCCACTCTTGGGCCTGGGCTTGACTCACCACTGTGGTCCCTGTGCATCAGGAATTG
TCACAACAATTGGGGGTGGTCCTTGAAAGCACTCCTTTTTCTATACCTCTTCTCAAGGCC
ATGTAAGTTCCTCCTCTCTACCTGCCTGGACAAAAGATGCCTGCTCCTGGCCAGCCAGTG
GGCGGCTCAGGGTCTGAAGATATGGCACAGGGACTGAATGGCAACGCCCCCACCCTGTGC
TGAGACAGGAGGTCCTTCTGTCAGCTTTCTCTCCCATCCCTCCTTCACTCAAGGGCCACG
TCCCTGGTTCTGCCTGTCAAAGGCCCCACAGGTGCTATTTGTTGTGCTGGCCCAGGTGTG
GGGCCGCCAAGCTCAGCCTTGGCCTGCCGAGGGTCAGCTGCATGTCAGTTGGTCTTGTCC
CTCCTCTGCAGTGACCTGTTGGTATTAATGCTGGATTCAAACAGTATGTTTTACTCTCCC
AGGCTGGTGGCTGGGGACCTGACCCCTAGCTCCCCATCCTGCCACCTTCGCCCCCGCTTC
CTGCCCCCATGTAAGTCCTCTCGTGTTTTAGTAACTTGCAGTGAGTGACCATACCTGTCC
CTCTGTCGCAGGAACCTGGAGGTAAGGGAAAGATGATGCCGTATTTCCTACTCCTTAGGG
CATGGATCCCCTTCTTTCCCTTATTAGTGTCCTGGGTTCCCGTGGACTCAGGGATTTGTT
GGTTGAGGTTTCCCTGCATATATATATACATATATATATATTTAAATATGCATATATATA
TATTGTACAGAATAAAAATGTTTTATTGAAAAAAAAAAAAAAAAAAAA

Predicted RNA structure(s): 2 entry(ies)

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Predicted RNA structure(s): 2 entry(ies)

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               265-481, - strand, RNAz p=0.929766
               

               
               630-865, + strand, RNAz p=0.99998

Predicted RNA structure(s): 2 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


               
               265-481, - strand, RNAz p=0.929766
               

               
               630-865, + strand, RNAz p=0.99998

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               665-783, + strand, RNAmicro p=0.99989

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


               
               665-783, + strand, RNAmicro p=0.99989

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               644-797, 480483 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BI898746.1|), 
blast E-value=9e-35, identity=89.1% 
               

               
               644-797, MONO1_6_H02.g1_A005 Monocytes (MONO1) Equus caballus cDNA, mRNA 
(gb|BI961516.1|), blast E-value=9e-38, identity=89.68% 
               

               
               644-797, 957932 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK769828.1|), 
blast E-value=9e-35, identity=89.1% 
               

               
               644-797, 965409 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK778252.1|), 
blast E-value=9e-35, identity=89.1% 
               

               
               644-797, BE04024B2B03 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN441018.1|), blast E-value=9e-35, identity=89.1% 
               

               
               644-797, LB01228.CR_A24 GC_BGC-12 Bos taurus cDNA clone IMAGE (gb|DV846589.1|), 
blast E-value=9e-35, identity=89.1%

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


               
               644-797, 480483 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BI898746.1|), 
blast E-value=9e-35, identity=89.1% 
               

               
               644-797, MONO1_6_H02.g1_A005 Monocytes (MONO1) Equus caballus cDNA, mRNA 
(gb|BI961516.1|), blast E-value=9e-38, identity=89.68% 
               

               
               644-797, 957932 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK769828.1|), 
blast E-value=9e-35, identity=89.1% 
               

               
               644-797, 965409 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK778252.1|), 
blast E-value=9e-35, identity=89.1% 
               

               
               644-797, BE04024B2B03 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN441018.1|), blast E-value=9e-35, identity=89.1% 
               

               
               644-797, LB01228.CR_A24 GC_BGC-12 Bos taurus cDNA clone IMAGE (gb|DV846589.1|), 
blast E-value=9e-35, identity=89.1%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of BC064968, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of BC064968, +

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               1-540, gnl|bosTau2|chr23 (16096429-16095891)
               

               
               1-540, gnl|Hg17|chr6 (43697085-43696522)
               

               
               1-540, gnl|Mm7|chr17 (44297958-44298475)
               


               
               558-876, gnl|bosTau2|chr23 (16095892-16095581)
               

               
               558-876, gnl|Hg17|chr6 (43696523-43696221)
               

               
               558-876, gnl|Mm7|chr17 (44298474-44298760)

Aligned organism(s): 6 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


               
               1-540, gnl|bosTau2|chr23 (16096429-16095891)
               

               
               1-540, gnl|Hg17|chr6 (43697085-43696522)
               

               
               1-540, gnl|Mm7|chr17 (44297958-44298475)
               


               
               558-876, gnl|bosTau2|chr23 (16095892-16095581)
               

               
               558-876, gnl|Hg17|chr6 (43696523-43696221)
               

               
               558-876, gnl|Mm7|chr17 (44298474-44298760)

Expressed library(ies): 7 entry(ies)

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Expressed library(ies): 7 entry(ies)

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               elu (0.385356)
               

               
               ton (0.351)
               

               
               nep (0.183925)
               

               
               fty (0.17584)
               

               
               lnt (0.142308)
               

               
               nca (0.136874)
               

               
               cty (0.10408)

Expressed library(ies): 7 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


               
               elu (0.385356)
               

               
               ton (0.351)
               

               
               nep (0.183925)
               

               
               fty (0.17584)
               

               
               lnt (0.142308)
               

               
               nca (0.136874)
               

               
               cty (0.10408)

	265-481, - strand, RNAz p=0.929766
	630-865, + strand, RNAz p=0.99998

	644-797, 480483 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb\|BI898746.1\|), blast E-value=9e-35, identity=89.1%
	644-797, MONO1_6_H02.g1_A005 Monocytes (MONO1) Equus caballus cDNA, mRNA (gb\|BI961516.1\|), blast E-value=9e-38, identity=89.68%
	644-797, 957932 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK769828.1\|), blast E-value=9e-35, identity=89.1%
	644-797, 965409 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK778252.1\|), blast E-value=9e-35, identity=89.1%
	644-797, BE04024B2B03 BE04 Normalized and Subtracted bovine embryonic and (gb\|CN441018.1\|), blast E-value=9e-35, identity=89.1%
	644-797, LB01228.CR_A24 GC_BGC-12 Bos taurus cDNA clone IMAGE (gb\|DV846589.1\|), blast E-value=9e-35, identity=89.1%

	1-540, gnl\|bosTau2\|chr23 (16096429-16095891)
	1-540, gnl\|Hg17\|chr6 (43697085-43696522)
	1-540, gnl\|Mm7\|chr17 (44297958-44298475)

	558-876, gnl\|bosTau2\|chr23 (16095892-16095581)
	558-876, gnl\|Hg17\|chr6 (43696523-43696221)
	558-876, gnl\|Mm7\|chr17 (44298474-44298760)

	elu (0.385356)
	ton (0.351)
	nep (0.183925)
	fty (0.17584)
	lnt (0.142308)
	nca (0.136874)
	cty (0.10408)