Non-Coding RNA Search

Ss1.1-Mixn-0013m17.5

Sequence:


               
               ACACTGGCTCCTGGGGCCTGGGGGCCTTGGGGACAGATGGCAACTCCAAGGGCAGGGTCC
AGAGGGGCCCAGAACCTTTGGCAGAGCCCTGCCCTCCCTGCCCTCCCTACCCCCACTCCC
TGCTGGAGACAGGGTCTGGTGGGCTTGGCATCGGCTGAGAACAGCTCTAATACCCATCAT
TGCCAAGTCCCTGCGTCGTCTGGGCCTGTCCGAGGAGCTTCCCCACGTTGTCTCATTTAA
CCCTTAGGAGGTAGGTTTGGTACCCCCACTTTCCTGGGGGCAGAGGCTTGGAGAGGGTCA
AGAACCTTCCCAAGGCCACTGGATTGACCCTCGAAGGCCAGGCAGGATTTGAATCCGTGC
CTCTCAGTTCCCGAACCCATGATCTATCTACTCTGCCAGCTTCCCCTCTTCACAGGGACT
CTTAGGCTGGGCGGGCATCAGGCTGGGCGGCTCCTGAGGCTCCAGCCGGGAAGGAGGGCA
GGACCCTGCCCAGCACGAGTCTGCAGAGGCCCTGGACCTCCTTCTTCCACTCCCCTCCCT
GGGTTCGTGGTCTGCTCTGAGGCCTGGGGGTGGCGTGGCCAGGAGGCCCTGAATCAACCC
ATGATAGTCATGTGATCTTGCAGACTGTAAGTCAGGAGCACTGGGGTGCGAGGACCCTCA
AACTCAACTGACATGGCCCTCCGCTGCATCCCAGGCTCTCTGACCCCACCCACCCCCAGG
GCCTCCCAGCCCTGAGCGGGTAAGGGGGATTTAAGGGGAACGTGCTCCCTCCAGGGGCCG
CCCCGGCAGCCCTGCCCTCTCCCAGGCTCTCTAGGAATCTGCAGGGTCAGCCATGTCCAT
GTGACACAGCAAGTCCTCTGTCCTTCTGTCCCCGGCTTGAGTCCCAGGCCCTGCTGGGGG
GTGATGCTCCCACCCTGGTGCTGGGGCCCAGCCACGCTCCCCACTAGACACCCAGAGCCC
CAGGTCCCCAGAGCAGCTCAGACCACAGCCCTCAGGGCCTCTCAGGCCTCGGTCCCCTGT
GCCCTAGACTGACCCTGGTGCTCCTCTCTCACTGGGTCAGCGACGGCAGCCAACTCAGAC
ACTCCCAGGTGCTGGCACCCCACCCCGCGTCTGCGTGTGCCCTCGAGGCTGGAGCCACTT
GTCCCCGCTGCCCTTGGTGCTCCTGGGAGGCCATGGCCTGGTCCCTCCGGGCCCTGGTAA
CCTCTCCCTGCCCTCAAGGCCTAGACTGTCCCTGCTAAGGCAGGGCTGGCTGTGTGGGGG
GCCGAGATGTGACTTCCTGCAGGCCTGTCTTCACGGAGGGGGTGGCCAGGGCTGGCGGGA
AGTCTGTAACCCTCCGACAATAAAGGTGCTCTCCCC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ACACTGGCTCCTGGGGCCTGGGGGCCTTGGGGACAGATGGCAACTCCAAGGGCAGGGTCC
AGAGGGGCCCAGAACCTTTGGCAGAGCCCTGCCCTCCCTGCCCTCCCTACCCCCACTCCC
TGCTGGAGACAGGGTCTGGTGGGCTTGGCATCGGCTGAGAACAGCTCTAATACCCATCAT
TGCCAAGTCCCTGCGTCGTCTGGGCCTGTCCGAGGAGCTTCCCCACGTTGTCTCATTTAA
CCCTTAGGAGGTAGGTTTGGTACCCCCACTTTCCTGGGGGCAGAGGCTTGGAGAGGGTCA
AGAACCTTCCCAAGGCCACTGGATTGACCCTCGAAGGCCAGGCAGGATTTGAATCCGTGC
CTCTCAGTTCCCGAACCCATGATCTATCTACTCTGCCAGCTTCCCCTCTTCACAGGGACT
CTTAGGCTGGGCGGGCATCAGGCTGGGCGGCTCCTGAGGCTCCAGCCGGGAAGGAGGGCA
GGACCCTGCCCAGCACGAGTCTGCAGAGGCCCTGGACCTCCTTCTTCCACTCCCCTCCCT
GGGTTCGTGGTCTGCTCTGAGGCCTGGGGGTGGCGTGGCCAGGAGGCCCTGAATCAACCC
ATGATAGTCATGTGATCTTGCAGACTGTAAGTCAGGAGCACTGGGGTGCGAGGACCCTCA
AACTCAACTGACATGGCCCTCCGCTGCATCCCAGGCTCTCTGACCCCACCCACCCCCAGG
GCCTCCCAGCCCTGAGCGGGTAAGGGGGATTTAAGGGGAACGTGCTCCCTCCAGGGGCCG
CCCCGGCAGCCCTGCCCTCTCCCAGGCTCTCTAGGAATCTGCAGGGTCAGCCATGTCCAT
GTGACACAGCAAGTCCTCTGTCCTTCTGTCCCCGGCTTGAGTCCCAGGCCCTGCTGGGGG
GTGATGCTCCCACCCTGGTGCTGGGGCCCAGCCACGCTCCCCACTAGACACCCAGAGCCC
CAGGTCCCCAGAGCAGCTCAGACCACAGCCCTCAGGGCCTCTCAGGCCTCGGTCCCCTGT
GCCCTAGACTGACCCTGGTGCTCCTCTCTCACTGGGTCAGCGACGGCAGCCAACTCAGAC
ACTCCCAGGTGCTGGCACCCCACCCCGCGTCTGCGTGTGCCCTCGAGGCTGGAGCCACTT
GTCCCCGCTGCCCTTGGTGCTCCTGGGAGGCCATGGCCTGGTCCCTCCGGGCCCTGGTAA
CCTCTCCCTGCCCTCAAGGCCTAGACTGTCCCTGCTAAGGCAGGGCTGGCTGTGTGGGGG
GCCGAGATGTGACTTCCTGCAGGCCTGTCTTCACGGAGGGGGTGGCCAGGGCTGGCGGGA
AGTCTGTAACCCTCCGACAATAAAGGTGCTCTCCCC

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

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

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               6-157, - strand, RNAz p=0.999995
               

               
               236-390, - strand, RNAz p=0.969247
               

               
               1141-1300, + strand, RNAz p=0.992378
               

               
               1158-1277, - strand, RNAz p=0.999054

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


               
               6-157, - strand, RNAz p=0.999995
               

               
               236-390, - strand, RNAz p=0.969247
               

               
               1141-1300, + strand, RNAz p=0.992378
               

               
               1158-1277, - strand, RNAz p=0.999054

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               35-129, - strand, RNAmicro p=0.977001

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


               
               35-129, - strand, RNAmicro p=0.977001

Similar Transcript(s): 3 entry(ies)

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Similar Transcript(s): 3 entry(ies)

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               21-142, 166267 BARC 5BOV Bos taurus cDNA 5', mRNA sequence (gb|BE480989.1|), 
blast E-value=3e-21, identity=86.4% 
               

               
               22-142, 272004 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BF605564.1|), 
blast E-value=1e-20, identity=86.29% 
               

               
               21-142, LB01615.CR_K02 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT811565.1|), 
blast E-value=3e-21, identity=86.4%

Similar Transcript(s): 3 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


               
               21-142, 166267 BARC 5BOV Bos taurus cDNA 5', mRNA sequence (gb|BE480989.1|), 
blast E-value=3e-21, identity=86.4% 
               

               
               22-142, 272004 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|BF605564.1|), 
blast E-value=1e-20, identity=86.29% 
               

               
               21-142, LB01615.CR_K02 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT811565.1|), 
blast E-value=3e-21, identity=86.4%

Aligned organism(s): 11 entry(ies)

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Aligned organism(s): 11 entry(ies)

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               6-573, gnl|bosTau2|chr25 (30747284-30747831)
               

               
               6-573, gnl|Hg17|chr7 (100794365-100794929)
               


               
               974-1301, gnl|bosTau2|chr25 (30748444-30748763)
               

               
               974-1301, gnl|canFam2|chr6 (11384451-11383944)
               

               
               974-1301, gnl|hg17|chr7 (100795379-100795909)
               

               
               974-1301, gnl|Hg17|chr7 (100795378-100795700)
               

               
               974-1301, gnl|loxAfr1|scaffold_95407 (4900-5371)
               

               
               974-1301, gnl|mm7|chr5 (135712952-135712544)
               

               
               974-1301, gnl|panTro1|chr6 (102566445-102566975)
               

               
               974-1301, gnl|rheMac2|chr3 (48854539-48855060)
               

               
               974-1301, gnl|rn3|chr12 (21038910-21039308)

Aligned organism(s): 11 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


               
               6-573, gnl|bosTau2|chr25 (30747284-30747831)
               

               
               6-573, gnl|Hg17|chr7 (100794365-100794929)
               


               
               974-1301, gnl|bosTau2|chr25 (30748444-30748763)
               

               
               974-1301, gnl|canFam2|chr6 (11384451-11383944)
               

               
               974-1301, gnl|hg17|chr7 (100795379-100795909)
               

               
               974-1301, gnl|Hg17|chr7 (100795378-100795700)
               

               
               974-1301, gnl|loxAfr1|scaffold_95407 (4900-5371)
               

               
               974-1301, gnl|mm7|chr5 (135712952-135712544)
               

               
               974-1301, gnl|panTro1|chr6 (102566445-102566975)
               

               
               974-1301, gnl|rheMac2|chr3 (48854539-48855060)
               

               
               974-1301, gnl|rn3|chr12 (21038910-21039308)

Expressed library(ies): 5 entry(ies)

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Expressed library(ies): 5 entry(ies)

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               elu (0.770713)
               

               
               eep (0.245128)
               

               
               nco (0.161734)
               

               
               eru (0.120048)
               

               
               ecc (0.115035)

Expressed library(ies): 5 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 (0.770713)
               

               
               eep (0.245128)
               

               
               nco (0.161734)
               

               
               eru (0.120048)
               

               
               ecc (0.115035)

	6-157, - strand, RNAz p=0.999995
	236-390, - strand, RNAz p=0.969247
	1141-1300, + strand, RNAz p=0.992378
	1158-1277, - strand, RNAz p=0.999054

	21-142, 166267 BARC 5BOV Bos taurus cDNA 5', mRNA sequence (gb\|BE480989.1\|), blast E-value=3e-21, identity=86.4%
	22-142, 272004 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb\|BF605564.1\|), blast E-value=1e-20, identity=86.29%
	21-142, LB01615.CR_K02 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb\|DT811565.1\|), blast E-value=3e-21, identity=86.4%

	6-573, gnl\|bosTau2\|chr25 (30747284-30747831)
	6-573, gnl\|Hg17\|chr7 (100794365-100794929)

	974-1301, gnl\|bosTau2\|chr25 (30748444-30748763)
	974-1301, gnl\|canFam2\|chr6 (11384451-11383944)
	974-1301, gnl\|hg17\|chr7 (100795379-100795909)
	974-1301, gnl\|Hg17\|chr7 (100795378-100795700)
	974-1301, gnl\|loxAfr1\|scaffold_95407 (4900-5371)
	974-1301, gnl\|mm7\|chr5 (135712952-135712544)
	974-1301, gnl\|panTro1\|chr6 (102566445-102566975)
	974-1301, gnl\|rheMac2\|chr3 (48854539-48855060)
	974-1301, gnl\|rn3\|chr12 (21038910-21039308)

	elu (0.770713)
	eep (0.245128)
	nco (0.161734)
	eru (0.120048)
	ecc (0.115035)