Non-Coding RNA Search

Ss1.1-Mixc-0038,l13.5

Sequence:


               
               TCTTAACCTTTCCCGAATGATTCACATGGACTAATCTTTCTGATCTGTAAATACTTCAAA
AAAAAAAAAAAAAGGTAGTTTTGTATCAATCTAAATGAGTCACAGTTCAAAAATATGCAT
TTCAATCTTTTCATAATTGTTGACCTAAGAAGATTATACATTTTCTAGTGACATGTACAT
ACTGTATATAGCCGAATTAACGGTTATAAAGTTTTGTACCATTTATTTTATGACATTTTA
CAATGTAACTATTGCAACTAACTGTTGGTAGGAGAAAGTTTCTTGAGGAACGAATACCCT
GCTCAACACTTAATCAATCTTTGTGCCTCAACATAATGTTGATGTCTAAGTATGCCTCAG
TGGGTCGAGAAATTCCCCATTGAAGATGTCCTATCCACCGAAACGAAATGCCGTGCACAT
CACCTGACATGTGTACCCATACTTATTGAATCAGAAATGTAAGGCATTGGTGATGTTTGC
ATTTACCCTCCTGTAAGCAGCACTTTAACGTCTTACATTTTCTCTGATGATGTCACACTC
AAAATTATTATGACAAATACTACCAGAGCAAAGTGCAACGGCCAGCACTTTGTTCGCTCA
TTTCACACTGCCTCTGACCATAGAGAGTGCCTGAGTAGCTTGGAAAAGTAACATCGCCTG
GCCATCCCCTCGTTTAACCAAGCTATTCATGTATTCCTATGCCAGAGCAGTGCCAACTCT
TGGAGGTCCTGGGGTGCAGCCAACGCCTTCGTGTGGTAGCTCCAAATTTAAATTACACCA
GAGAAACCAGGGCAACTAAGCAATGAGCCACAGCAAAAAATAAAGAACAACAAGAACAAC
AAAAGAAAGCTGTCGTTAAACAACACTATCACTAACTGCCCAGAATATCAATTTGATTGT
AGTTCTTTTCATGCAGGTTTAAGTTCGATTGTTAGTTATAATTGTTTGACCTCCTTGAGA
TAGTGACAACAAAATAAAGCAAGCTATCTGCACCTCAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TCTTAACCTTTCCCGAATGATTCACATGGACTAATCTTTCTGATCTGTAAATACTTCAAA
AAAAAAAAAAAAAGGTAGTTTTGTATCAATCTAAATGAGTCACAGTTCAAAAATATGCAT
TTCAATCTTTTCATAATTGTTGACCTAAGAAGATTATACATTTTCTAGTGACATGTACAT
ACTGTATATAGCCGAATTAACGGTTATAAAGTTTTGTACCATTTATTTTATGACATTTTA
CAATGTAACTATTGCAACTAACTGTTGGTAGGAGAAAGTTTCTTGAGGAACGAATACCCT
GCTCAACACTTAATCAATCTTTGTGCCTCAACATAATGTTGATGTCTAAGTATGCCTCAG
TGGGTCGAGAAATTCCCCATTGAAGATGTCCTATCCACCGAAACGAAATGCCGTGCACAT
CACCTGACATGTGTACCCATACTTATTGAATCAGAAATGTAAGGCATTGGTGATGTTTGC
ATTTACCCTCCTGTAAGCAGCACTTTAACGTCTTACATTTTCTCTGATGATGTCACACTC
AAAATTATTATGACAAATACTACCAGAGCAAAGTGCAACGGCCAGCACTTTGTTCGCTCA
TTTCACACTGCCTCTGACCATAGAGAGTGCCTGAGTAGCTTGGAAAAGTAACATCGCCTG
GCCATCCCCTCGTTTAACCAAGCTATTCATGTATTCCTATGCCAGAGCAGTGCCAACTCT
TGGAGGTCCTGGGGTGCAGCCAACGCCTTCGTGTGGTAGCTCCAAATTTAAATTACACCA
GAGAAACCAGGGCAACTAAGCAATGAGCCACAGCAAAAAATAAAGAACAACAAGAACAAC
AAAAGAAAGCTGTCGTTAAACAACACTATCACTAACTGCCCAGAATATCAATTTGATTGT
AGTTCTTTTCATGCAGGTTTAAGTTCGATTGTTAGTTATAATTGTTTGACCTCCTTGAGA
TAGTGACAACAAAATAAAGCAAGCTATCTGCACCTCAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

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

More info

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

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               119-277, - strand, RNAz p=0.747554
               

               
               391-738, + strand, RNAz p=0.993439

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


               
               119-277, - strand, RNAz p=0.747554
               

               
               391-738, + strand, RNAz p=0.993439

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               467-545, + strand, RNAmicro p=0.999895

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


               
               467-545, + strand, RNAmicro p=0.999895

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               391-738, Hw_loin_8_050812_D10 Bos taurus CF-24-HW loin cDNA library Bos 
(gb|DV794789.1|), blast E-value=0, identity=91.43% 
               

               
               391-738, Hw_Loin_11_0520_E09 Bos taurus CF-24-HW loin cDNA library Bos 
(gb|DV796358.1|), blast E-value=0, identity=91.43% 
               

               
               391-738, Hw-loin_37_G08 Bos taurus CF-24-HW loin cDNA library Bos taurus 
(gb|DV796596.1|), blast E-value=0, identity=91.43% 
               

               
               391-738, HW_Loin_1_G01 Bos taurus CF-24-HW loin cDNA library Bos taurus 
(gb|DV797378.1|), blast E-value=0, identity=91.43% 
               

               
               391-738, LB03013.CR_F17 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV928373.1|), 
blast E-value=0, identity=91.43% 
               

               
               391-738, LB03041.CR_N16 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE374228.1|), 
blast E-value=0, identity=91.43%

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


               
               391-738, Hw_loin_8_050812_D10 Bos taurus CF-24-HW loin cDNA library Bos 
(gb|DV794789.1|), blast E-value=0, identity=91.43% 
               

               
               391-738, Hw_Loin_11_0520_E09 Bos taurus CF-24-HW loin cDNA library Bos 
(gb|DV796358.1|), blast E-value=0, identity=91.43% 
               

               
               391-738, Hw-loin_37_G08 Bos taurus CF-24-HW loin cDNA library Bos taurus 
(gb|DV796596.1|), blast E-value=0, identity=91.43% 
               

               
               391-738, HW_Loin_1_G01 Bos taurus CF-24-HW loin cDNA library Bos taurus 
(gb|DV797378.1|), blast E-value=0, identity=91.43% 
               

               
               391-738, LB03013.CR_F17 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV928373.1|), 
blast E-value=0, identity=91.43% 
               

               
               391-738, LB03041.CR_N16 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE374228.1|), 
blast E-value=0, identity=91.43%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1000, gnl|bosTau2|chr2 (7877535-7878520)
               

               
               1-1000, gnl|Hg17|chr2 (179217214-179216223)
               

               
               1-1000, gnl|Mm7|chr2 (76548701-76547696)

Aligned organism(s): 3 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


               
               1-1000, gnl|bosTau2|chr2 (7877535-7878520)
               

               
               1-1000, gnl|Hg17|chr2 (179217214-179216223)
               

               
               1-1000, gnl|Mm7|chr2 (76548701-76547696)

Expressed library(ies): 18 entry(ies)

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Expressed library(ies): 18 entry(ies)

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               isp (2.70677)
               

               
               bfe (2.54758)
               

               
               tbr (2.31267)
               

               
               ste (2.29854)
               

               
               ctl (2.14297)
               

               
               ssp (2.0328)
               

               
               hea (1.63599)
               

               
               hlv (1.53182)
               

               
               vin (1.33023)
               

               
               mas (1.26183)
               

               
               sme (1.22175)
               

               
               ldo (1.16403)
               

               
               nms (1.06929)
               

               
               che (0.68157)
               

               
               ese (0.379507)
               

               
               tes (0.207814)
               

               
               nep (0.183925)
               

               
               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


               
               isp (2.70677)
               

               
               bfe (2.54758)
               

               
               tbr (2.31267)
               

               
               ste (2.29854)
               

               
               ctl (2.14297)
               

               
               ssp (2.0328)
               

               
               hea (1.63599)
               

               
               hlv (1.53182)
               

               
               vin (1.33023)
               

               
               mas (1.26183)
               

               
               sme (1.22175)
               

               
               ldo (1.16403)
               

               
               nms (1.06929)
               

               
               che (0.68157)
               

               
               ese (0.379507)
               

               
               tes (0.207814)
               

               
               nep (0.183925)
               

               
               eru (0.120048)

	119-277, - strand, RNAz p=0.747554
	391-738, + strand, RNAz p=0.993439

	391-738, Hw_loin_8_050812_D10 Bos taurus CF-24-HW loin cDNA library Bos (gb\|DV794789.1\|), blast E-value=0, identity=91.43%
	391-738, Hw_Loin_11_0520_E09 Bos taurus CF-24-HW loin cDNA library Bos (gb\|DV796358.1\|), blast E-value=0, identity=91.43%
	391-738, Hw-loin_37_G08 Bos taurus CF-24-HW loin cDNA library Bos taurus (gb\|DV796596.1\|), blast E-value=0, identity=91.43%
	391-738, HW_Loin_1_G01 Bos taurus CF-24-HW loin cDNA library Bos taurus (gb\|DV797378.1\|), blast E-value=0, identity=91.43%
	391-738, LB03013.CR_F17 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|DV928373.1\|), blast E-value=0, identity=91.43%
	391-738, LB03041.CR_N16 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE374228.1\|), blast E-value=0, identity=91.43%

	1-1000, gnl\|bosTau2\|chr2 (7877535-7878520)
	1-1000, gnl\|Hg17\|chr2 (179217214-179216223)
	1-1000, gnl\|Mm7\|chr2 (76548701-76547696)

	isp (2.70677)
	bfe (2.54758)
	tbr (2.31267)
	ste (2.29854)
	ctl (2.14297)
	ssp (2.0328)
	hea (1.63599)
	hlv (1.53182)
	vin (1.33023)
	mas (1.26183)
	sme (1.22175)
	ldo (1.16403)
	nms (1.06929)
	che (0.68157)
	ese (0.379507)
	tes (0.207814)
	nep (0.183925)
	eru (0.120048)