Non-Coding RNA Search

rspc009_c23.y1

Sequence:


               
               GTTAACAGAACAGTTAGATTTTCTAAGTACACATTCACAAAGATGAAAAATTCTCAAATT
CTTTCCCAGTTTAATAACAATTATATAACAGGAAATATTCCTGATACCAAAATTACACAG
GGGTTGGGAGAAAAATAAAACTGTCAACCCCTTATGTGAGAAGGCTGTTCAACAGCAATC
TATGGTGAAATTTTCTGAATCTTCGAAACAGACTTCCAAAGAGGAAGAAGAGAAAAATAG
AAAGTATTCTCCTGAAGAAATTCAGAGAAAAAGACAAGAAG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GTTAACAGAACAGTTAGATTTTCTAAGTACACATTCACAAAGATGAAAAATTCTCAAATT
CTTTCCCAGTTTAATAACAATTATATAACAGGAAATATTCCTGATACCAAAATTACACAG
GGGTTGGGAGAAAAATAAAACTGTCAACCCCTTATGTGAGAAGGCTGTTCAACAGCAATC
TATGGTGAAATTTTCTGAATCTTCGAAACAGACTTCCAAAGAGGAAGAAGAGAAAAATAG
AAAGTATTCTCCTGAAGAAATTCAGAGAAAAAGACAAGAAG

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

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

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               81-200, + strand, RNAz p=0.526008
               

               
               87-221, - strand, RNAz p=0.999002

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


               
               81-200, + strand, RNAz p=0.526008
               

               
               87-221, - strand, RNAz p=0.999002

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               87-210, AJ693151 KN261 Bos taurus cDNA clone KN261-029_H15, mRNA sequence 
(emb|AJ693151.1|), blast E-value=6e-22, identity=87.1% 
               

               
               87-210, AM006669 KN-252-bone-marrow, Bos taurus Bos taurus cDNA clone 
(emb|AM006669.1|), blast E-value=6e-22, identity=87.1% 
               

               
               87-210, 1160526 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN279487.1|), 
blast E-value=6e-22, identity=87.1% 
               

               
               87-210, 1162446 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN281267.1|), 
blast E-value=6e-22, identity=87.1% 
               

               
               87-210, LB01828.CR_E08 GC_BGC-18 Bos taurus cDNA clone IMAGE (gb|EE225199.1|), 
blast E-value=6e-22, identity=87.1% 
               

               
               87-210, LB02111.CR_F19 GC_BGC-21 Bos taurus cDNA clone IMAGE (gb|EE231724.1|), 
blast E-value=6e-22, identity=87.1%

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


               
               87-210, AJ693151 KN261 Bos taurus cDNA clone KN261-029_H15, mRNA sequence 
(emb|AJ693151.1|), blast E-value=6e-22, identity=87.1% 
               

               
               87-210, AM006669 KN-252-bone-marrow, Bos taurus Bos taurus cDNA clone 
(emb|AM006669.1|), blast E-value=6e-22, identity=87.1% 
               

               
               87-210, 1160526 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN279487.1|), 
blast E-value=6e-22, identity=87.1% 
               

               
               87-210, 1162446 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN281267.1|), 
blast E-value=6e-22, identity=87.1% 
               

               
               87-210, LB01828.CR_E08 GC_BGC-18 Bos taurus cDNA clone IMAGE (gb|EE225199.1|), 
blast E-value=6e-22, identity=87.1% 
               

               
               87-210, LB02111.CR_F19 GC_BGC-21 Bos taurus cDNA clone IMAGE (gb|EE231724.1|), 
blast E-value=6e-22, identity=87.1%

Aligned organism(s): 16 entry(ies)

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Aligned organism(s): 16 entry(ies)

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               2-221, gnl|bosTau2|chr11 (41713424-41713642)
               

               
               2-221, gnl|canFam2|chr10 (69789346-69789542)
               

               
               2-221, gnl|dasNov1|scaffold_12067 (38581-38777)
               

               
               2-221, gnl|echTel1|scaffold_294066 (18388-18201)
               

               
               2-221, gnl|galGal2|chr3 (6266174-6265980)
               

               
               2-221, gnl|hg17|chr2 (67543847-67544040)
               

               
               2-221, gnl|Hg17|chr2 (67543900-67544118)
               

               
               2-221, gnl|loxAfr1|scaffold_99687 (7764-7565)
               

               
               2-221, gnl|mm7|chr11 (17897868-17897693)
               

               
               2-221, gnl|Mm7|chr11 (17897814-17897616)
               

               
               2-221, gnl|monDom2|scaffold_1 (33833537-33833742)
               

               
               2-221, gnl|oryCun1|scaffold_214655 (39403-39594)
               

               
               2-221, gnl|panTro1|chr12 (69793436-69793629)
               

               
               2-221, gnl|rheMac2|chr13 (67677849-67678036)
               

               
               2-221, gnl|rn3|chr14 (98834148-98833961)
               

               
               2-221, gnl|xenTro1|scaffold_112 (806949-807139)

Aligned organism(s): 16 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


               
               2-221, gnl|bosTau2|chr11 (41713424-41713642)
               

               
               2-221, gnl|canFam2|chr10 (69789346-69789542)
               

               
               2-221, gnl|dasNov1|scaffold_12067 (38581-38777)
               

               
               2-221, gnl|echTel1|scaffold_294066 (18388-18201)
               

               
               2-221, gnl|galGal2|chr3 (6266174-6265980)
               

               
               2-221, gnl|hg17|chr2 (67543847-67544040)
               

               
               2-221, gnl|Hg17|chr2 (67543900-67544118)
               

               
               2-221, gnl|loxAfr1|scaffold_99687 (7764-7565)
               

               
               2-221, gnl|mm7|chr11 (17897868-17897693)
               

               
               2-221, gnl|Mm7|chr11 (17897814-17897616)
               

               
               2-221, gnl|monDom2|scaffold_1 (33833537-33833742)
               

               
               2-221, gnl|oryCun1|scaffold_214655 (39403-39594)
               

               
               2-221, gnl|panTro1|chr12 (69793436-69793629)
               

               
               2-221, gnl|rheMac2|chr13 (67677849-67678036)
               

               
               2-221, gnl|rn3|chr14 (98834148-98833961)
               

               
               2-221, gnl|xenTro1|scaffold_112 (806949-807139)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               spc (0.113366)

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


               
               spc (0.113366)

	81-200, + strand, RNAz p=0.526008
	87-221, - strand, RNAz p=0.999002

	87-210, AJ693151 KN261 Bos taurus cDNA clone KN261-029_H15, mRNA sequence (emb\|AJ693151.1\|), blast E-value=6e-22, identity=87.1%
	87-210, AM006669 KN-252-bone-marrow, Bos taurus Bos taurus cDNA clone (emb\|AM006669.1\|), blast E-value=6e-22, identity=87.1%
	87-210, 1160526 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN279487.1\|), blast E-value=6e-22, identity=87.1%
	87-210, 1162446 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN281267.1\|), blast E-value=6e-22, identity=87.1%
	87-210, LB01828.CR_E08 GC_BGC-18 Bos taurus cDNA clone IMAGE (gb\|EE225199.1\|), blast E-value=6e-22, identity=87.1%
	87-210, LB02111.CR_F19 GC_BGC-21 Bos taurus cDNA clone IMAGE (gb\|EE231724.1\|), blast E-value=6e-22, identity=87.1%

	2-221, gnl\|bosTau2\|chr11 (41713424-41713642)
	2-221, gnl\|canFam2\|chr10 (69789346-69789542)
	2-221, gnl\|dasNov1\|scaffold_12067 (38581-38777)
	2-221, gnl\|echTel1\|scaffold_294066 (18388-18201)
	2-221, gnl\|galGal2\|chr3 (6266174-6265980)
	2-221, gnl\|hg17\|chr2 (67543847-67544040)
	2-221, gnl\|Hg17\|chr2 (67543900-67544118)
	2-221, gnl\|loxAfr1\|scaffold_99687 (7764-7565)
	2-221, gnl\|mm7\|chr11 (17897868-17897693)
	2-221, gnl\|Mm7\|chr11 (17897814-17897616)
	2-221, gnl\|monDom2\|scaffold_1 (33833537-33833742)
	2-221, gnl\|oryCun1\|scaffold_214655 (39403-39594)
	2-221, gnl\|panTro1\|chr12 (69793436-69793629)
	2-221, gnl\|rheMac2\|chr13 (67677849-67678036)
	2-221, gnl\|rn3\|chr14 (98834148-98833961)
	2-221, gnl\|xenTro1\|scaffold_112 (806949-807139)