Non-Coding RNA Search

Ss1.1-rese12c_n15.5

Sequence:


               
               GAAGGGGCTGCAGAGGCTTGAGTGAGGGGCTCCGTCGGGCGGGAGCAGGTGGCCGCCTTC
CGTGCACTTGGGAGTCCTCTCCGCACCCCTCGCTGACACCGCGCCCGCCTCTCAGCGCCC
CGTCTGGCCCCCAGAAAGCTCGGAGCTCTGCGGGGCTTCCTGGGGTCCAGGCGGGGTGAG
GTGGGGCAGTAGGAGAGGTCCAGAGGGATGAGCCCTGCCGAGCAAGAGAGCTGCGAGCGT
GTGCGACAGCTGGGGTCACCCGGGCCCCGAGGCCCTCGGGTCTGGCGGTACCGACCCAGC
CACCGTCTCGGCGCCTAGGGCTGCGGCAGGGACCCCGGGCGGCTGGGAGGTTTACCTCAC
CCCCGCCTCTGCCCCCAGCGCAGCCCCCCTGCACAGCAGCCCGACTAGCCAGCTAGAGGC
CCGAAGCTTCTGGGCCCCGGTGACGGGGCTGGCACGACCCTGGGGGCGGTCCGTGCCAGC
CCACCCGAGGCACAGAGGACCCTTGGCCGGCGCCCGGGGAGTGGGCCATTCGGACCATTG
GACAGAAGCCTAAAGAACCAAATTGTCCCCATTGGAGACCAGACAGATTGGCCTGAGATC
CAAAGCGCAAGGTGCCCCAAATTTCTGCCCACTCAGCCGGACGCCCACGCACCCCAGGCT
ACCTTTGCCTCGCTCCGGGTGCGGGCTCCGGGGGCGTCGGCCGAGCCTCCTCTGTGCCCC
CCAAGGGTCGCGACCATCAGACCCCGGGCCCCCTCTGACCTCCGTGCCCTGCTGGTGGCC
CTCCAACTGTCTCCTCCTGAGGCTCCCTGTCCGTCTTCAGCGGGACCCCCTCTTGGGTCC
CCGCAGCATCGCCGAGGACCCCCACGTGCAGACCACCGAGTGTCACCTTGCCGGCCGCCC
AGCCCACCTCGCGGCCGTGTTCGCCTCCACTCGCCCCTAACATGCTGGTACTTCTGGCAG
AATCCACCGCTGGGGTTCTGTCTTTAACCTTTAATGCTCGCAGTCCCAATAAAGCATTTA
AATTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GAAGGGGCTGCAGAGGCTTGAGTGAGGGGCTCCGTCGGGCGGGAGCAGGTGGCCGCCTTC
CGTGCACTTGGGAGTCCTCTCCGCACCCCTCGCTGACACCGCGCCCGCCTCTCAGCGCCC
CGTCTGGCCCCCAGAAAGCTCGGAGCTCTGCGGGGCTTCCTGGGGTCCAGGCGGGGTGAG
GTGGGGCAGTAGGAGAGGTCCAGAGGGATGAGCCCTGCCGAGCAAGAGAGCTGCGAGCGT
GTGCGACAGCTGGGGTCACCCGGGCCCCGAGGCCCTCGGGTCTGGCGGTACCGACCCAGC
CACCGTCTCGGCGCCTAGGGCTGCGGCAGGGACCCCGGGCGGCTGGGAGGTTTACCTCAC
CCCCGCCTCTGCCCCCAGCGCAGCCCCCCTGCACAGCAGCCCGACTAGCCAGCTAGAGGC
CCGAAGCTTCTGGGCCCCGGTGACGGGGCTGGCACGACCCTGGGGGCGGTCCGTGCCAGC
CCACCCGAGGCACAGAGGACCCTTGGCCGGCGCCCGGGGAGTGGGCCATTCGGACCATTG
GACAGAAGCCTAAAGAACCAAATTGTCCCCATTGGAGACCAGACAGATTGGCCTGAGATC
CAAAGCGCAAGGTGCCCCAAATTTCTGCCCACTCAGCCGGACGCCCACGCACCCCAGGCT
ACCTTTGCCTCGCTCCGGGTGCGGGCTCCGGGGGCGTCGGCCGAGCCTCCTCTGTGCCCC
CCAAGGGTCGCGACCATCAGACCCCGGGCCCCCTCTGACCTCCGTGCCCTGCTGGTGGCC
CTCCAACTGTCTCCTCCTGAGGCTCCCTGTCCGTCTTCAGCGGGACCCCCTCTTGGGTCC
CCGCAGCATCGCCGAGGACCCCCACGTGCAGACCACCGAGTGTCACCTTGCCGGCCGCCC
AGCCCACCTCGCGGCCGTGTTCGCCTCCACTCGCCCCTAACATGCTGGTACTTCTGGCAG
AATCCACCGCTGGGGTTCTGTCTTTAACCTTTAATGCTCGCAGTCCCAATAAAGCATTTA
AATTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAA

Predicted RNA structure(s): 4 entry(ies)

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Predicted RNA structure(s): 4 entry(ies)

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               76-233, + strand, RNAz p=0.999991
               

               
               313-472, - strand, RNAz p=0.994886
               

               
               734-991, - strand, RNAz p=0.854058
               

               
               909-1023, - strand, RNAz p=0.953533

Predicted RNA structure(s): 4 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


               
               76-233, + strand, RNAz p=0.999991
               

               
               313-472, - strand, RNAz p=0.994886
               

               
               734-991, - strand, RNAz p=0.854058
               

               
               909-1023, - strand, RNAz p=0.953533

Predicted microRNA(s): 4 entry(ies)

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Predicted microRNA(s): 4 entry(ies)

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               111-211, - strand, RNAmicro p=0.999998
               

               
               91-212, + strand, RNAmicro p=0.999419
               

               
               436-568, - strand, RNAmicro p=0.999108
               

               
               325-409, + strand, RNAmicro p=0.997984

Predicted microRNA(s): 4 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


               
               111-211, - strand, RNAmicro p=0.999998
               

               
               91-212, + strand, RNAmicro p=0.999419
               

               
               436-568, - strand, RNAmicro p=0.999108
               

               
               325-409, + strand, RNAmicro p=0.997984

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               76-144, DB804617 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB804617.1|), blast E-value=5e-20, identity=94.2% 
               

               
               103-198, sh1-aqc21_l0.s2 adult sheep fracture callus pool Ovis aries cDNA, 
(gb|DY479312.1|), blast E-value=2e-22, identity=90.72% 
               

               
               103-198, LB03082.CR_K01 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE386381.1|), 
blast E-value=1e-17, identity=88.66% 
               

               
               103-198, LB03085.CR_C11 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE387090.1|), 
blast E-value=1e-17, identity=88.66% 
               

               
               103-198, LB03091.CR_K19 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE388997.1|), 
blast E-value=1e-17, identity=88.66% 
               

               
               103-198, LB03094.CR_O13 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE389904.1|), 
blast E-value=1e-17, identity=88.66%

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


               
               76-144, DB804617 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB804617.1|), blast E-value=5e-20, identity=94.2% 
               

               
               103-198, sh1-aqc21_l0.s2 adult sheep fracture callus pool Ovis aries cDNA, 
(gb|DY479312.1|), blast E-value=2e-22, identity=90.72% 
               

               
               103-198, LB03082.CR_K01 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE386381.1|), 
blast E-value=1e-17, identity=88.66% 
               

               
               103-198, LB03085.CR_C11 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE387090.1|), 
blast E-value=1e-17, identity=88.66% 
               

               
               103-198, LB03091.CR_K19 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE388997.1|), 
blast E-value=1e-17, identity=88.66% 
               

               
               103-198, LB03094.CR_O13 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE389904.1|), 
blast E-value=1e-17, identity=88.66%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of NM_001007139, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of NM_001007139, +

Aligned organism(s): 13 entry(ies)

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Aligned organism(s): 13 entry(ies)

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               1-498, gnl|bosTau2|chr29 (44323912-44323416)
               

               
               1-498, gnl|Hg17|chr11 (2107981-2107486)
               

               
               1-498, gnl|Mm7|chr7 (139079076-139078392)
               


               
               716-1026, gnl|bosTau2|chr29 (44323412-44323105)
               

               
               716-1026, gnl|canFam2|chr18 (49316665-49317381)
               

               
               716-1026, gnl|hg17|chr11 (2106480-2107252)
               

               
               716-1026, gnl|Hg17|chr11 (2107248-2106926)
               

               
               716-1026, gnl|loxAfr1|scaffold_83759 (8904-9613)
               

               
               716-1026, gnl|mm7|chr7 (139077682-139078368)
               

               
               716-1026, gnl|Mm7|chr7 (139078388-139078050)
               

               
               716-1026, gnl|panTro1|chr9 (2302451-2303223)
               

               
               716-1026, gnl|rheMac2|chr14 (2026170-2026942)
               

               
               716-1026, gnl|rn3|chr1 (203094310-203095014)

Aligned organism(s): 13 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


               
               1-498, gnl|bosTau2|chr29 (44323912-44323416)
               

               
               1-498, gnl|Hg17|chr11 (2107981-2107486)
               

               
               1-498, gnl|Mm7|chr7 (139079076-139078392)
               


               
               716-1026, gnl|bosTau2|chr29 (44323412-44323105)
               

               
               716-1026, gnl|canFam2|chr18 (49316665-49317381)
               

               
               716-1026, gnl|hg17|chr11 (2106480-2107252)
               

               
               716-1026, gnl|Hg17|chr11 (2107248-2106926)
               

               
               716-1026, gnl|loxAfr1|scaffold_83759 (8904-9613)
               

               
               716-1026, gnl|mm7|chr7 (139077682-139078368)
               

               
               716-1026, gnl|Mm7|chr7 (139078388-139078050)
               

               
               716-1026, gnl|panTro1|chr9 (2302451-2303223)
               

               
               716-1026, gnl|rheMac2|chr14 (2026170-2026942)
               

               
               716-1026, gnl|rn3|chr1 (203094310-203095014)

Expressed library(ies): 20 entry(ies)

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Expressed library(ies): 20 entry(ies)

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               amn (7.5188)
               

               
               ese (2.53004)
               

               
               eru (2.28091)
               

               
               fli (1.82593)
               

               
               nca (1.50561)
               

               
               eep (1.10308)
               

               
               pla (1.06938)
               

               
               jca (1.02564)
               

               
               nms (0.855432)
               

               
               ute (0.531138)
               

               
               eye (0.511509)
               

               
               eli (0.455443)
               

               
               ece (0.229305)
               

               
               mas (0.210305)
               

               
               nep (0.183925)
               

               
               fbs (0.175346)
               

               
               nco (0.161734)
               

               
               cli (0.152812)
               

               
               pty (0.142714)
               

               
               eje (0.0988338)

Expressed library(ies): 20 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


               
               amn (7.5188)
               

               
               ese (2.53004)
               

               
               eru (2.28091)
               

               
               fli (1.82593)
               

               
               nca (1.50561)
               

               
               eep (1.10308)
               

               
               pla (1.06938)
               

               
               jca (1.02564)
               

               
               nms (0.855432)
               

               
               ute (0.531138)
               

               
               eye (0.511509)
               

               
               eli (0.455443)
               

               
               ece (0.229305)
               

               
               mas (0.210305)
               

               
               nep (0.183925)
               

               
               fbs (0.175346)
               

               
               nco (0.161734)
               

               
               cli (0.152812)
               

               
               pty (0.142714)
               

               
               eje (0.0988338)

	76-233, + strand, RNAz p=0.999991
	313-472, - strand, RNAz p=0.994886
	734-991, - strand, RNAz p=0.854058
	909-1023, - strand, RNAz p=0.953533

	111-211, - strand, RNAmicro p=0.999998
	91-212, + strand, RNAmicro p=0.999419
	436-568, - strand, RNAmicro p=0.999108
	325-409, + strand, RNAmicro p=0.997984

	76-144, DB804617 full-length enriched swine cDNA library, adult skin Sus (dbj\|DB804617.1\|), blast E-value=5e-20, identity=94.2%
	103-198, sh1-aqc21_l0.s2 adult sheep fracture callus pool Ovis aries cDNA, (gb\|DY479312.1\|), blast E-value=2e-22, identity=90.72%
	103-198, LB03082.CR_K01 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE386381.1\|), blast E-value=1e-17, identity=88.66%
	103-198, LB03085.CR_C11 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE387090.1\|), blast E-value=1e-17, identity=88.66%
	103-198, LB03091.CR_K19 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE388997.1\|), blast E-value=1e-17, identity=88.66%
	103-198, LB03094.CR_O13 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE389904.1\|), blast E-value=1e-17, identity=88.66%

	1-498, gnl\|bosTau2\|chr29 (44323912-44323416)
	1-498, gnl\|Hg17\|chr11 (2107981-2107486)
	1-498, gnl\|Mm7\|chr7 (139079076-139078392)

	716-1026, gnl\|bosTau2\|chr29 (44323412-44323105)
	716-1026, gnl\|canFam2\|chr18 (49316665-49317381)
	716-1026, gnl\|hg17\|chr11 (2106480-2107252)
	716-1026, gnl\|Hg17\|chr11 (2107248-2106926)
	716-1026, gnl\|loxAfr1\|scaffold_83759 (8904-9613)
	716-1026, gnl\|mm7\|chr7 (139077682-139078368)
	716-1026, gnl\|Mm7\|chr7 (139078388-139078050)
	716-1026, gnl\|panTro1\|chr9 (2302451-2303223)
	716-1026, gnl\|rheMac2\|chr14 (2026170-2026942)
	716-1026, gnl\|rn3\|chr1 (203094310-203095014)

	amn (7.5188)
	ese (2.53004)
	eru (2.28091)
	fli (1.82593)
	nca (1.50561)
	eep (1.10308)
	pla (1.06938)
	jca (1.02564)
	nms (0.855432)
	ute (0.531138)
	eye (0.511509)
	eli (0.455443)
	ece (0.229305)
	mas (0.210305)
	nep (0.183925)
	fbs (0.175346)
	nco (0.161734)
	cli (0.152812)
	pty (0.142714)
	eje (0.0988338)