Non-Coding RNA Search

Ss1.1-Pig4-TMW8030M23.5

Sequence:


               
               GGGGGGAGGGGAGGAAGCACCAGAGTGCTTATAACTAAAATAACTTTTTCCATTTTTAAT
AAAACGCCAAAAATATCACAACCCACCAAAAATAGATGCCTCCCCCACCGCCCTTAACCA
AGCTGGTGCGCACAGCTTCCCAGGCCCTGGCGCCCGCCCTCTAGTGCCTGCTATGGTCAC
GTCTCACCAGACCCCACTGCGCCCTGCCCCCCTCTCTAGGCTCTGCCCAGTGCCACCCTT
GGGTGGCCCCTCACCCCAGAGGCAGCAGTGACAGCTTGGGACAGGAGGACCGGAGAGTGG
AGGGGGAAGGCGAGGGAGGGCAGCAGAGCCAAGGCTAGTATTTCTCCCCGTCCCTACTCT
AGAAGCTTAGAGAGCCAGCCAGCAATGGAGCCTTCTGGTTCCTGCGCCAATTGCCACCAA
TATCAATTGTGTGCGCTTGTGTACGAGTGCATGTGTGCGTGAGTATGTAGGGTATATATA
GGTATCTCTTAGCAAAGGTGAATACCAGGTGTAAATTGTGCCTGTGGACAAATGAGGCTT
GTATTTTGCACATTTTATAAAAACTTGAGGAGACAGATTCCTGCTTGTATATTTCTAAAG
AGAAAACACCCCAGCGTCCCTTGCCACACCCGTCCCTTTCAGCCCCTCTTATACCTCCGC
CCTAGCCAAGGAGTATGAATTTATAGATCTAACAGAAGCTTCAAGGCAATCGAGTCTGTG
GATGTGCATGTACGGTCCCGGCCCGGGGCCGGGGTGGAGAAGTGCACCGTGGGGGCCTCA
GTGGGTGTCCCCACACCCTTCCCTCCCCGCCCCCGGCACAAGTCCCCTGCCAAGCTCAGG
CTCGCCCACACCCTGCCCCCTGGGCTGGGCGCCACTGCTGCAGGGATCCCAGGTGGGCAC
CCCCCTGGGAGGGGATCCTGGGTGTGGTTCCCGCCTGCGAGCTAAAGGCCGATGCACTTT
CCGCGTCTCAAGCCCTCCAAGTAGCAGCTTCCCTTAACCCACGTGTGTCCTGTCCCATCC
CATCCCGAGACAGCCAGCGCGCCCTAGGAAGGCTTCCCCCACACCCCACGTCGGCGGAGG
GGCGGGGCCCGGGGAGGGCGGGGGTCCCACGGGACGCTTACTGTGCTAAAAGCCACTGCA
AACATAGCAATAAAAACGTCATTTTCCAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGGGGGAGGGGAGGAAGCACCAGAGTGCTTATAACTAAAATAACTTTTTCCATTTTTAAT
AAAACGCCAAAAATATCACAACCCACCAAAAATAGATGCCTCCCCCACCGCCCTTAACCA
AGCTGGTGCGCACAGCTTCCCAGGCCCTGGCGCCCGCCCTCTAGTGCCTGCTATGGTCAC
GTCTCACCAGACCCCACTGCGCCCTGCCCCCCTCTCTAGGCTCTGCCCAGTGCCACCCTT
GGGTGGCCCCTCACCCCAGAGGCAGCAGTGACAGCTTGGGACAGGAGGACCGGAGAGTGG
AGGGGGAAGGCGAGGGAGGGCAGCAGAGCCAAGGCTAGTATTTCTCCCCGTCCCTACTCT
AGAAGCTTAGAGAGCCAGCCAGCAATGGAGCCTTCTGGTTCCTGCGCCAATTGCCACCAA
TATCAATTGTGTGCGCTTGTGTACGAGTGCATGTGTGCGTGAGTATGTAGGGTATATATA
GGTATCTCTTAGCAAAGGTGAATACCAGGTGTAAATTGTGCCTGTGGACAAATGAGGCTT
GTATTTTGCACATTTTATAAAAACTTGAGGAGACAGATTCCTGCTTGTATATTTCTAAAG
AGAAAACACCCCAGCGTCCCTTGCCACACCCGTCCCTTTCAGCCCCTCTTATACCTCCGC
CCTAGCCAAGGAGTATGAATTTATAGATCTAACAGAAGCTTCAAGGCAATCGAGTCTGTG
GATGTGCATGTACGGTCCCGGCCCGGGGCCGGGGTGGAGAAGTGCACCGTGGGGGCCTCA
GTGGGTGTCCCCACACCCTTCCCTCCCCGCCCCCGGCACAAGTCCCCTGCCAAGCTCAGG
CTCGCCCACACCCTGCCCCCTGGGCTGGGCGCCACTGCTGCAGGGATCCCAGGTGGGCAC
CCCCCTGGGAGGGGATCCTGGGTGTGGTTCCCGCCTGCGAGCTAAAGGCCGATGCACTTT
CCGCGTCTCAAGCCCTCCAAGTAGCAGCTTCCCTTAACCCACGTGTGTCCTGTCCCATCC
CATCCCGAGACAGCCAGCGCGCCCTAGGAAGGCTTCCCCCACACCCCACGTCGGCGGAGG
GGCGGGGCCCGGGGAGGGCGGGGGTCCCACGGGACGCTTACTGTGCTAAAAGCCACTGCA
AACATAGCAATAAAAACGTCATTTTCCAAAAAAAAA

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

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

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               1-115, - strand, RNAz p=0.970422
               

               
               154-264, - strand, RNAz p=0.977097
               

               
               826-941, + strand, RNAz p=0.744794

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


               
               1-115, - strand, RNAz p=0.970422
               

               
               154-264, - strand, RNAz p=0.977097
               

               
               826-941, + strand, RNAz p=0.744794

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               1-115, DB788197 full-length enriched swine cDNA library, adult adrenal 
(dbj|DB788197.1|), blast E-value=0, identity=100% 
               

               
               2-102, BX523641 Barstead stromal cell line MPL-RB5 Mus musculus cDNA clone 
(emb|BX523641.1|), blast E-value=1e-31, identity=94.12% 
               

               
               2-102, 602106666F1 NCI_CGAP_Kid14 Mus musculus cDNA clone IMAGE 
(gb|BF781035.1|), blast E-value=6e-34, identity=95.1% 
               

               
               2-102, 602106866F1 NCI_CGAP_Kid14 Mus musculus cDNA clone IMAGE 
(gb|BF781204.1|), blast E-value=6e-34, identity=95.1% 
               

               
               2-102, 8041-77 Mouse E14.5 retina lambda ZAP II Library Mus musculus cDNA, 
(gb|CA527410.1|), blast E-value=1e-31, identity=94.12% 
               

               
               2-102, UI-M-HD0-cle-o-01-0-UI.r1 NIH_BMAP_HD0 Mus musculus cDNA clone 
(gb|CF739096.1|), blast E-value=1e-31, identity=94.12%

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


               
               1-115, DB788197 full-length enriched swine cDNA library, adult adrenal 
(dbj|DB788197.1|), blast E-value=0, identity=100% 
               

               
               2-102, BX523641 Barstead stromal cell line MPL-RB5 Mus musculus cDNA clone 
(emb|BX523641.1|), blast E-value=1e-31, identity=94.12% 
               

               
               2-102, 602106666F1 NCI_CGAP_Kid14 Mus musculus cDNA clone IMAGE 
(gb|BF781035.1|), blast E-value=6e-34, identity=95.1% 
               

               
               2-102, 602106866F1 NCI_CGAP_Kid14 Mus musculus cDNA clone IMAGE 
(gb|BF781204.1|), blast E-value=6e-34, identity=95.1% 
               

               
               2-102, 8041-77 Mouse E14.5 retina lambda ZAP II Library Mus musculus cDNA, 
(gb|CA527410.1|), blast E-value=1e-31, identity=94.12% 
               

               
               2-102, UI-M-HD0-cle-o-01-0-UI.r1 NIH_BMAP_HD0 Mus musculus cDNA clone 
(gb|CF739096.1|), blast E-value=1e-31, identity=94.12%

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               1-692, gnl|bosTau2|chrX (13579867-13579161)
               

               
               1-692, gnl|Hg17|chrX (152481635-152482381)
               

               
               1-692, gnl|Mm7|chrX (69067871-69068612)
               


               
               826-1170, gnl|bosTau2|chrX (13578978-13578642)
               

               
               826-1170, gnl|Hg17|chrX (152482581-152482890)
               

               
               826-1170, gnl|Mm7|chrX (69068809-69069150)

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


               
               1-692, gnl|bosTau2|chrX (13579867-13579161)
               

               
               1-692, gnl|Hg17|chrX (152481635-152482381)
               

               
               1-692, gnl|Mm7|chrX (69067871-69068612)
               


               
               826-1170, gnl|bosTau2|chrX (13578978-13578642)
               

               
               826-1170, gnl|Hg17|chrX (152482581-152482890)
               

               
               826-1170, gnl|Mm7|chrX (69068809-69069150)

Expressed library(ies): 7 entry(ies)

More info

Expressed library(ies): 7 entry(ies)

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               nje (0.66368)
               

               
               fhi (0.339155)
               

               
               fco (0.157208)
               

               
               eli (0.151814)
               

               
               ssp (0.13552)
               

               
               pla (0.133672)
               

               
               cov (0.132153)

Expressed library(ies): 7 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


               
               nje (0.66368)
               

               
               fhi (0.339155)
               

               
               fco (0.157208)
               

               
               eli (0.151814)
               

               
               ssp (0.13552)
               

               
               pla (0.133672)
               

               
               cov (0.132153)

	1-115, - strand, RNAz p=0.970422
	154-264, - strand, RNAz p=0.977097
	826-941, + strand, RNAz p=0.744794

	1-115, DB788197 full-length enriched swine cDNA library, adult adrenal (dbj\|DB788197.1\|), blast E-value=0, identity=100%
	2-102, BX523641 Barstead stromal cell line MPL-RB5 Mus musculus cDNA clone (emb\|BX523641.1\|), blast E-value=1e-31, identity=94.12%
	2-102, 602106666F1 NCI_CGAP_Kid14 Mus musculus cDNA clone IMAGE (gb\|BF781035.1\|), blast E-value=6e-34, identity=95.1%
	2-102, 602106866F1 NCI_CGAP_Kid14 Mus musculus cDNA clone IMAGE (gb\|BF781204.1\|), blast E-value=6e-34, identity=95.1%
	2-102, 8041-77 Mouse E14.5 retina lambda ZAP II Library Mus musculus cDNA, (gb\|CA527410.1\|), blast E-value=1e-31, identity=94.12%
	2-102, UI-M-HD0-cle-o-01-0-UI.r1 NIH_BMAP_HD0 Mus musculus cDNA clone (gb\|CF739096.1\|), blast E-value=1e-31, identity=94.12%

	1-692, gnl\|bosTau2\|chrX (13579867-13579161)
	1-692, gnl\|Hg17\|chrX (152481635-152482381)
	1-692, gnl\|Mm7\|chrX (69067871-69068612)

	826-1170, gnl\|bosTau2\|chrX (13578978-13578642)
	826-1170, gnl\|Hg17\|chrX (152482581-152482890)
	826-1170, gnl\|Mm7\|chrX (69068809-69069150)

	nje (0.66368)
	fhi (0.339155)
	fco (0.157208)
	eli (0.151814)
	ssp (0.13552)
	pla (0.133672)
	cov (0.132153)