Non-Coding RNA Search

Ss1.1-rese40c_i20.5

Sequence:


               
               GGGGAAAAAAAAAAAAAAAAGCAGTGATGTATCAGATGCTGTTAAAAGCTAGGGGAGGCC
GGATGATCTGGGCCCCTCCTACCTTTCTTTCCTCCTGATGTAAGCCTGCTTAAGGAATGT
GGATGTGAAAACAAAACAAAGCAGTTTGCATCTGAAGTCAGTAAGATCACACAAAAAGGA
TGTAATGCCAGAACAAGAATGGGGTGTGTACAACAGGGTCCCCAGTGTTTGGGGACATTG
AAGTCACTTGTCTCGCAGTGGGGAGGCTACTGAGGGGTAGCAGGTCCATCCCCAGCAGCT
GGTCCAACAGTCATATCCTGGTGAATGTCTGTTCAGCTCTTCTACTATTAAAGAGAATGA
CTTTTTCCATATGTATATAGTAAAATATCTTACTATAAATTCTATGTACTTTATAAGTAT
TGGTTTGTGTGTTCCTTCTAAGAAGGACTCTAGTTTGTAATAAATGCCTATAATAACATA
TTTATTTTTATACATTTCTTTCTAATGATAAAACTTTTAAGTTATATCGCTTTTGTAAAA
GGTCATGTAAGAATAGAGTATTTATACAATATATGTTACTAGAAATAATAAAAGGACACT
TTTTGAATGTGTGTCTATTTTTTTTTTAATGGGAATTGATTCCTGGGAAGGAAATCTGAG
ATACAAATCTTGAATCTGAAGACAGAATATTTTCTTAAATTCTCATAGAAATAAGATGTT
GTTCTAATGAAATGTACTTTGTGTATCCTTGGTATATGTGATTGCTACAAAGAGAGATAT
CTATTATATCTTTGGTGATGGATAGGTTTGTTAATGATGTCATAATACATACCAGTGGTT
GGCAAGCTTTTTCTGTAAAGAGCCAAATAGTATATAGGTTTTGTGAGTCATACCCTCTCT
GTCACAGCTACTCAACCATGCAGTAGTAGCATGAAAATAGGGGTAGACAGTATCTAAGTG
AATGGGCATGGTGGTGTTCCAATAAAACTTTATTTACAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGGGAAAAAAAAAAAAAAAAGCAGTGATGTATCAGATGCTGTTAAAAGCTAGGGGAGGCC
GGATGATCTGGGCCCCTCCTACCTTTCTTTCCTCCTGATGTAAGCCTGCTTAAGGAATGT
GGATGTGAAAACAAAACAAAGCAGTTTGCATCTGAAGTCAGTAAGATCACACAAAAAGGA
TGTAATGCCAGAACAAGAATGGGGTGTGTACAACAGGGTCCCCAGTGTTTGGGGACATTG
AAGTCACTTGTCTCGCAGTGGGGAGGCTACTGAGGGGTAGCAGGTCCATCCCCAGCAGCT
GGTCCAACAGTCATATCCTGGTGAATGTCTGTTCAGCTCTTCTACTATTAAAGAGAATGA
CTTTTTCCATATGTATATAGTAAAATATCTTACTATAAATTCTATGTACTTTATAAGTAT
TGGTTTGTGTGTTCCTTCTAAGAAGGACTCTAGTTTGTAATAAATGCCTATAATAACATA
TTTATTTTTATACATTTCTTTCTAATGATAAAACTTTTAAGTTATATCGCTTTTGTAAAA
GGTCATGTAAGAATAGAGTATTTATACAATATATGTTACTAGAAATAATAAAAGGACACT
TTTTGAATGTGTGTCTATTTTTTTTTTAATGGGAATTGATTCCTGGGAAGGAAATCTGAG
ATACAAATCTTGAATCTGAAGACAGAATATTTTCTTAAATTCTCATAGAAATAAGATGTT
GTTCTAATGAAATGTACTTTGTGTATCCTTGGTATATGTGATTGCTACAAAGAGAGATAT
CTATTATATCTTTGGTGATGGATAGGTTTGTTAATGATGTCATAATACATACCAGTGGTT
GGCAAGCTTTTTCTGTAAAGAGCCAAATAGTATATAGGTTTTGTGAGTCATACCCTCTCT
GTCACAGCTACTCAACCATGCAGTAGTAGCATGAAAATAGGGGTAGACAGTATCTAAGTG
AATGGGCATGGTGGTGTTCCAATAAAACTTTATTTACAAAAAAAAAAAAAAAAAAAAAAA

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

More info

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

Help | Less info


               
               155-451, + strand, RNAz p=0.99982
               

               
               803-895, - strand, RNAz p=0.728513

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


               
               155-451, + strand, RNAz p=0.99982
               

               
               803-895, - strand, RNAz p=0.728513

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               173-449, 66432 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|AW428427.1|), 
blast E-value=0, identity=90.85% 
               

               
               165-449, DG11-163h9 DG11-kidney Canis familiaris cDNA 3', mRNA sequence 
(gb|CO683063.1|), blast E-value=0, identity=90.41% 
               

               
               165-449, nae15e02.x1 Dog eye eye minus lens and cornea. Unnormalized (nae) 
(gb|DN877670.1|), blast E-value=0, identity=90.41% 
               

               
               165-449, or05c03.y1 Dog eye minus lens and cornea. Unnormalized (or) Canis 
(gb|DN904094.1|), blast E-value=0, identity=90.07% 
               

               
               173-449, HW_Fat_68_050831_H06 Bos taurus CF-24-HW fat cDNA library Bos 
(gb|DV781442.1|), blast E-value=0, identity=90.53% 
               

               
               173-449, Hw_loin_22_050629_B03 Bos taurus CF-24-HW loin cDNA library Bos 
(gb|DV793865.1|), blast E-value=0, identity=90.53%

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


               
               173-449, 66432 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|AW428427.1|), 
blast E-value=0, identity=90.85% 
               

               
               165-449, DG11-163h9 DG11-kidney Canis familiaris cDNA 3', mRNA sequence 
(gb|CO683063.1|), blast E-value=0, identity=90.41% 
               

               
               165-449, nae15e02.x1 Dog eye eye minus lens and cornea. Unnormalized (nae) 
(gb|DN877670.1|), blast E-value=0, identity=90.41% 
               

               
               165-449, or05c03.y1 Dog eye minus lens and cornea. Unnormalized (or) Canis 
(gb|DN904094.1|), blast E-value=0, identity=90.07% 
               

               
               173-449, HW_Fat_68_050831_H06 Bos taurus CF-24-HW fat cDNA library Bos 
(gb|DV781442.1|), blast E-value=0, identity=90.53% 
               

               
               173-449, Hw_loin_22_050629_B03 Bos taurus CF-24-HW loin cDNA library Bos 
(gb|DV793865.1|), blast E-value=0, identity=90.53%

Aligned organism(s): 3 entry(ies)

More info

Aligned organism(s): 3 entry(ies)

Help | Less info


               
               2-995, gnl|bosTau2|chr1 (5834292-5833292)
               

               
               2-995, gnl|Hg17|chr21 (27131063-27130033)
               

               
               2-995, gnl|Mm7|chr16 (85790690-85789763)

Aligned organism(s): 3 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


               
               2-995, gnl|bosTau2|chr1 (5834292-5833292)
               

               
               2-995, gnl|Hg17|chr21 (27131063-27130033)
               

               
               2-995, gnl|Mm7|chr16 (85790690-85789763)

Expressed library(ies): 18 entry(ies)

More info

Expressed library(ies): 18 entry(ies)

Help | Less info


               
               gul (0.887942)
               

               
               amn (0.417711)
               

               
               aor (0.390549)
               

               
               bla (0.373042)
               

               
               cut (0.339847)
               

               
               sug (0.254582)
               

               
               hea (0.204499)
               

               
               nlu (0.191681)
               

               
               cki (0.165235)
               

               
               lun (0.150489)
               

               
               lnt (0.142308)
               

               
               csk (0.140746)
               

               
               ssp (0.13552)
               

               
               lyg (0.133103)
               

               
               ute (0.132784)
               

               
               ese (0.126502)
               

               
               eep (0.122564)
               

               
               eru (0.120048)

Expressed library(ies): 18 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


               
               gul (0.887942)
               

               
               amn (0.417711)
               

               
               aor (0.390549)
               

               
               bla (0.373042)
               

               
               cut (0.339847)
               

               
               sug (0.254582)
               

               
               hea (0.204499)
               

               
               nlu (0.191681)
               

               
               cki (0.165235)
               

               
               lun (0.150489)
               

               
               lnt (0.142308)
               

               
               csk (0.140746)
               

               
               ssp (0.13552)
               

               
               lyg (0.133103)
               

               
               ute (0.132784)
               

               
               ese (0.126502)
               

               
               eep (0.122564)
               

               
               eru (0.120048)

	155-451, + strand, RNAz p=0.99982
	803-895, - strand, RNAz p=0.728513

	173-449, 66432 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW428427.1\|), blast E-value=0, identity=90.85%
	165-449, DG11-163h9 DG11-kidney Canis familiaris cDNA 3', mRNA sequence (gb\|CO683063.1\|), blast E-value=0, identity=90.41%
	165-449, nae15e02.x1 Dog eye eye minus lens and cornea. Unnormalized (nae) (gb\|DN877670.1\|), blast E-value=0, identity=90.41%
	165-449, or05c03.y1 Dog eye minus lens and cornea. Unnormalized (or) Canis (gb\|DN904094.1\|), blast E-value=0, identity=90.07%
	173-449, HW_Fat_68_050831_H06 Bos taurus CF-24-HW fat cDNA library Bos (gb\|DV781442.1\|), blast E-value=0, identity=90.53%
	173-449, Hw_loin_22_050629_B03 Bos taurus CF-24-HW loin cDNA library Bos (gb\|DV793865.1\|), blast E-value=0, identity=90.53%

	2-995, gnl\|bosTau2\|chr1 (5834292-5833292)
	2-995, gnl\|Hg17\|chr21 (27131063-27130033)
	2-995, gnl\|Mm7\|chr16 (85790690-85789763)

	gul (0.887942)
	amn (0.417711)
	aor (0.390549)
	bla (0.373042)
	cut (0.339847)
	sug (0.254582)
	hea (0.204499)
	nlu (0.191681)
	cki (0.165235)
	lun (0.150489)
	lnt (0.142308)
	csk (0.140746)
	ssp (0.13552)
	lyg (0.133103)
	ute (0.132784)
	ese (0.126502)
	eep (0.122564)
	eru (0.120048)