Non-Coding RNA Search

Ss1.1-Pig2-100H10.5

Sequence:


               
               GAGTCCTGCAGGTCCAACCAGTGGACCTGAAGCCCTGGAATGGCCAAGGGCCCAGCAGAA
AGCTCTGCTGCTCTCCTCCCAGTGTCTACCAGCTCTCAAAGCTGCATCTTGCCGCCACTG
TGGGCACTAGGTCTTTTGGGGCCTAGCGCCTCTCTGGTGCCTCCAGTACTGCACTTTGCT
CCCAAGGTCTTCATTTCCTCAAGCATCAGCTCAGTGCTGGAAAACACTTCCAGCTTTAGG
CTATGCAGGGGCACCTAGGCCCTCCATCACTTGAGCCAGAGGAACAAGAGGGAAAGCAAT
TATTCCTTTTACCTTTTCCTTGTTGCAGCCCAGTGGTCAGCTGTGAGCTAGAAGTGTCCA
GGCTTAGGGAGCCCTGGGACCCTGCTAATCTCAGACCATCTTCTTCCAGGAGCAGGGTTC
TCCTAAGCCTAGGCCTATACGGCTATGCCCTAGTGATAAGGGGAGAGGAGAGGCCACGCT
CCCTGCCCTTGGCCCTTTGCATCCTAGGCTGACCCTGTCCTTGCCGAGGTGGGCATGAGG
TAGTTTTCTCTGCCCCAACCTCAAGACAGAGAAGGGGTGTGCCAACAGCACCCTCGCCTC
CTTGCCTCGGCTAGTTTTTTGGGGCAGGGGGCAGGGTCATGGTGGTCTTAGCTGACTATT
TTCTCAGTCTCCTGCCAGCTTCTTCTCAGCCCCTAGAAGGAAATACAGGGGCCTACTCCT
TTTTGTACATGTACCATTTCCCTTCTCTCTTGTACATAAACCCCAGACCTTCTTTCTCTC
AACAAAGGCTTGAAACACCAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAGTCCTGCAGGTCCAACCAGTGGACCTGAAGCCCTGGAATGGCCAAGGGCCCAGCAGAA
AGCTCTGCTGCTCTCCTCCCAGTGTCTACCAGCTCTCAAAGCTGCATCTTGCCGCCACTG
TGGGCACTAGGTCTTTTGGGGCCTAGCGCCTCTCTGGTGCCTCCAGTACTGCACTTTGCT
CCCAAGGTCTTCATTTCCTCAAGCATCAGCTCAGTGCTGGAAAACACTTCCAGCTTTAGG
CTATGCAGGGGCACCTAGGCCCTCCATCACTTGAGCCAGAGGAACAAGAGGGAAAGCAAT
TATTCCTTTTACCTTTTCCTTGTTGCAGCCCAGTGGTCAGCTGTGAGCTAGAAGTGTCCA
GGCTTAGGGAGCCCTGGGACCCTGCTAATCTCAGACCATCTTCTTCCAGGAGCAGGGTTC
TCCTAAGCCTAGGCCTATACGGCTATGCCCTAGTGATAAGGGGAGAGGAGAGGCCACGCT
CCCTGCCCTTGGCCCTTTGCATCCTAGGCTGACCCTGTCCTTGCCGAGGTGGGCATGAGG
TAGTTTTCTCTGCCCCAACCTCAAGACAGAGAAGGGGTGTGCCAACAGCACCCTCGCCTC
CTTGCCTCGGCTAGTTTTTTGGGGCAGGGGGCAGGGTCATGGTGGTCTTAGCTGACTATT
TTCTCAGTCTCCTGCCAGCTTCTTCTCAGCCCCTAGAAGGAAATACAGGGGCCTACTCCT
TTTTGTACATGTACCATTTCCCTTCTCTCTTGTACATAAACCCCAGACCTTCTTTCTCTC
AACAAAGGCTTGAAACACCAAAAA

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

More info

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

Help | Less info


               
               1-442, - strand, RNAz p=0.999864
               

               
               480-722, + strand, RNAz p=0.993524

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

Help | Less info

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


               
               1-442, - strand, RNAz p=0.999864
               

               
               480-722, + strand, RNAz p=0.993524

Predicted microRNA(s): 2 entry(ies)

More info

Predicted microRNA(s): 2 entry(ies)

Help | Less info


               
               371-512, - strand, RNAmicro p=0.999573
               

               
               636-730, + strand, RNAmicro p=0.927493

Predicted microRNA(s): 2 entry(ies)

Help | Less info

PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               371-512, - strand, RNAmicro p=0.999573
               

               
               636-730, + strand, RNAmicro p=0.927493

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               31-442, DB806630 full-length enriched swine cDNA library, adult intestine 
(dbj|DB806630.1|), blast E-value=0, identity=99.76% 
               

               
               276-438, DB813677 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB813677.1|), blast E-value=0, identity=96.32% 
               

               
               1-169, AJ746622 forward - stimulated minus unstimulated macrophage Sus 
(emb|AJ746622.1|), blast E-value=0, identity=99.41% 
               

               
               192-442, AR034B09PBC05AB09S Porcine Peripheral Blood Cell cDNA library, Cot 
(gb|BI132745.1|), blast E-value=0, identity=99.6% 
               

               
               1-436, 957999 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK769889.1|), 
blast E-value=2e-34, identity=80.66% 
               

               
               1-436, LB01920.CR_D10 GC_BGC-19 Bos taurus cDNA clone IMAGE (gb|DV831633.1|), 
blast E-value=2e-34, identity=80.66%

Similar Transcript(s): 6 entry(ies)

Help | Less info

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


               
               31-442, DB806630 full-length enriched swine cDNA library, adult intestine 
(dbj|DB806630.1|), blast E-value=0, identity=99.76% 
               

               
               276-438, DB813677 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB813677.1|), blast E-value=0, identity=96.32% 
               

               
               1-169, AJ746622 forward - stimulated minus unstimulated macrophage Sus 
(emb|AJ746622.1|), blast E-value=0, identity=99.41% 
               

               
               192-442, AR034B09PBC05AB09S Porcine Peripheral Blood Cell cDNA library, Cot 
(gb|BI132745.1|), blast E-value=0, identity=99.6% 
               

               
               1-436, 957999 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK769889.1|), 
blast E-value=2e-34, identity=80.66% 
               

               
               1-436, LB01920.CR_D10 GC_BGC-19 Bos taurus cDNA clone IMAGE (gb|DV831633.1|), 
blast E-value=2e-34, identity=80.66%

Homologous human UTR: 1 entry(ies)

More info

Homologous human UTR: 1 entry(ies)

Help | Less info


               
               5' of BC033181, +

Homologous human UTR: 1 entry(ies)

Help | Less info

Human gene identifier and UTR site,
human gene reading direction


               
               5' of BC033181, +

Aligned organism(s): 2 entry(ies)

More info

Aligned organism(s): 2 entry(ies)

Help | Less info


               
               1-800, gnl|bosTau2|chr5 (21748670-21749476)
               

               
               1-800, gnl|Hg17|chr12 (48325830-48324983)

Aligned organism(s): 2 entry(ies)

Help | Less info

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


               
               1-800, gnl|bosTau2|chr5 (21748670-21749476)
               

               
               1-800, gnl|Hg17|chr12 (48325830-48324983)

Expressed library(ies): 8 entry(ies)

More info

Expressed library(ies): 8 entry(ies)

Help | Less info


               
               elu (0.385356)
               

               
               col (0.195008)
               

               
               nep (0.183925)
               

               
               eli (0.151814)
               

               
               cov (0.132153)
               

               
               eru (0.120048)
               

               
               clu (0.119646)
               

               
               med (0.116252)

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


               
               elu (0.385356)
               

               
               col (0.195008)
               

               
               nep (0.183925)
               

               
               eli (0.151814)
               

               
               cov (0.132153)
               

               
               eru (0.120048)
               

               
               clu (0.119646)
               

               
               med (0.116252)

	1-442, - strand, RNAz p=0.999864
	480-722, + strand, RNAz p=0.993524

	371-512, - strand, RNAmicro p=0.999573
	636-730, + strand, RNAmicro p=0.927493

	31-442, DB806630 full-length enriched swine cDNA library, adult intestine (dbj\|DB806630.1\|), blast E-value=0, identity=99.76%
	276-438, DB813677 full-length enriched swine cDNA library, adult ovary Sus (dbj\|DB813677.1\|), blast E-value=0, identity=96.32%
	1-169, AJ746622 forward - stimulated minus unstimulated macrophage Sus (emb\|AJ746622.1\|), blast E-value=0, identity=99.41%
	192-442, AR034B09PBC05AB09S Porcine Peripheral Blood Cell cDNA library, Cot (gb\|BI132745.1\|), blast E-value=0, identity=99.6%
	1-436, 957999 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK769889.1\|), blast E-value=2e-34, identity=80.66%
	1-436, LB01920.CR_D10 GC_BGC-19 Bos taurus cDNA clone IMAGE (gb\|DV831633.1\|), blast E-value=2e-34, identity=80.66%

	1-800, gnl\|bosTau2\|chr5 (21748670-21749476)
	1-800, gnl\|Hg17\|chr12 (48325830-48324983)

	elu (0.385356)
	col (0.195008)
	nep (0.183925)
	eli (0.151814)
	cov (0.132153)
	eru (0.120048)
	clu (0.119646)
	med (0.116252)