Non-Coding RNA Search

Ss1.1-recc2806c_o21.5

Sequence:


               
               GGATAGAACCTGTCAGCTGCTCCTCTCTTTGCAGCCAGAAGTGCTGCCAGCTGCACCGGG
ATGGAGCAGCAGGGGCAGGACAGATGGACAGGTTCCTCTGCACTACAGTTCCCTGCTCCA
TGGAGACTGGGGCCTCTGGCCCAGGAGAGAGCCCTAGAGGGGCAGAAAGCCCCAGGGCAA
GAGGAATGGGCGGTTGTGGCTGGTGGTTTAAAGGTGGAACTTTCTCCGAAGCTCCTTCTC
TCTGCTCTTTCGTCCCTGCCTTCCCAGCAAGCTGCCCCTTCAGCCCTCCTTGAGTGCACC
CAATGACCCCCTCCCTTGGGGTGACTCCCGATGAAGCACAACTCCCCACAGGGCCCCCAG
CCCACAGGGGTGGCCATATTTGAGCAGTTCCCAGTCCTGTGGGCTTGGCTATCTGGGGAG
CAGATTTTGGGTCTGGATCTCCCTGGGGAGTGGGTCCTGGGCTTGGATCTTTCCCTAGGG
GGCCCTCTTACCCCTTCCTCTCCTCTCCTCCTCCCCCATTGCTGTAAATATTTCAATGAA
ATGGAAAAGAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGATAGAACCTGTCAGCTGCTCCTCTCTTTGCAGCCAGAAGTGCTGCCAGCTGCACCGGG
ATGGAGCAGCAGGGGCAGGACAGATGGACAGGTTCCTCTGCACTACAGTTCCCTGCTCCA
TGGAGACTGGGGCCTCTGGCCCAGGAGAGAGCCCTAGAGGGGCAGAAAGCCCCAGGGCAA
GAGGAATGGGCGGTTGTGGCTGGTGGTTTAAAGGTGGAACTTTCTCCGAAGCTCCTTCTC
TCTGCTCTTTCGTCCCTGCCTTCCCAGCAAGCTGCCCCTTCAGCCCTCCTTGAGTGCACC
CAATGACCCCCTCCCTTGGGGTGACTCCCGATGAAGCACAACTCCCCACAGGGCCCCCAG
CCCACAGGGGTGGCCATATTTGAGCAGTTCCCAGTCCTGTGGGCTTGGCTATCTGGGGAG
CAGATTTTGGGTCTGGATCTCCCTGGGGAGTGGGTCCTGGGCTTGGATCTTTCCCTAGGG
GGCCCTCTTACCCCTTCCTCTCCTCTCCTCCTCCCCCATTGCTGTAAATATTTCAATGAA
ATGGAAAAGAAA

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

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

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               30-342, - strand, RNAz p=0.999031
               

               
               299-552, - strand, RNAz p=0.992479
               

               
               383-552, + strand, RNAz p=0.993461

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


               
               30-342, - strand, RNAz p=0.999031
               

               
               299-552, - strand, RNAz p=0.992479
               

               
               383-552, + strand, RNAz p=0.993461

Predicted microRNA(s): 3 entry(ies)

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Predicted microRNA(s): 3 entry(ies)

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               353-504, + strand, RNAmicro p=0.999801
               

               
               77-171, - strand, RNAmicro p=0.966036
               

               
               104-193, + strand, RNAmicro p=0.93871

Predicted microRNA(s): 3 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


               
               353-504, + strand, RNAmicro p=0.999801
               

               
               77-171, - strand, RNAmicro p=0.966036
               

               
               104-193, + strand, RNAmicro p=0.93871

Similar Transcript(s): 12 entry(ies)

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Similar Transcript(s): 12 entry(ies)

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               30-342, LB0163.CR_J05 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT809429.1|), 
blast E-value=0, identity=89.31% 
               

               
               30-342, 1437939 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT884722.1|), 
blast E-value=0, identity=89.31% 
               

               
               30-342, LB02816.CR_F06 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV910041.1|), 
blast E-value=0, identity=89.31% 
               

               
               30-342, LB0187.CR_F19 GC_BGC-18 Bos taurus cDNA clone IMAGE (gb|EE225984.1|), 
blast E-value=0, identity=89.31% 
               

               
               30-342, LB02219.CR_J22 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb|EE240588.1|), 
blast E-value=0, identity=89.31% 
               

               
               30-342, LB02313.CR_I15 GC_BGC-23 Bos taurus cDNA clone IMAGE (gb|EE246055.1|), 
blast E-value=0, identity=89.31% 
               

               
               299-552, DA345767 BRSSN2 Homo sapiens cDNA clone BRSSN2006597 5', mRNA 
(dbj|DA345767.1|), blast E-value=0, identity=96.06% 
               

               
               299-552, DB363022 NT2RM4 Homo sapiens cDNA clone NT2RM4001480 3', mRNA 
(dbj|DB363022.1|), blast E-value=0, identity=96.06% 
               

               
               299-552, naf55c10.x1 NCI_CGAP_Brn65 Homo sapiens cDNA clone IMAGE 
(gb|BG152456.1|), blast E-value=0, identity=96.06% 
               

               
               299-552, UI-CF-EC1-aby-p-19-0-UI.s1 UI-CF-EC1 Homo sapiens cDNA clone 
(gb|BU682070.1|), blast E-value=0, identity=96.06% 
               

               
               299-552, UI-E-CK1-afj-e-23-0-UI.s1 UI-E-CK1 Homo sapiens cDNA clone 
(gb|BU730061.1|), blast E-value=0, identity=96.06% 
               

               
               299-552, UI-E-CK1-afj-e-23-0-UI.s2 UI-E-CK1 Homo sapiens cDNA clone 
(gb|BU733779.1|), blast E-value=0, identity=96.06%

Similar Transcript(s): 12 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


               
               30-342, LB0163.CR_J05 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT809429.1|), 
blast E-value=0, identity=89.31% 
               

               
               30-342, 1437939 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT884722.1|), 
blast E-value=0, identity=89.31% 
               

               
               30-342, LB02816.CR_F06 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb|DV910041.1|), 
blast E-value=0, identity=89.31% 
               

               
               30-342, LB0187.CR_F19 GC_BGC-18 Bos taurus cDNA clone IMAGE (gb|EE225984.1|), 
blast E-value=0, identity=89.31% 
               

               
               30-342, LB02219.CR_J22 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb|EE240588.1|), 
blast E-value=0, identity=89.31% 
               

               
               30-342, LB02313.CR_I15 GC_BGC-23 Bos taurus cDNA clone IMAGE (gb|EE246055.1|), 
blast E-value=0, identity=89.31% 
               

               
               299-552, DA345767 BRSSN2 Homo sapiens cDNA clone BRSSN2006597 5', mRNA 
(dbj|DA345767.1|), blast E-value=0, identity=96.06% 
               

               
               299-552, DB363022 NT2RM4 Homo sapiens cDNA clone NT2RM4001480 3', mRNA 
(dbj|DB363022.1|), blast E-value=0, identity=96.06% 
               

               
               299-552, naf55c10.x1 NCI_CGAP_Brn65 Homo sapiens cDNA clone IMAGE 
(gb|BG152456.1|), blast E-value=0, identity=96.06% 
               

               
               299-552, UI-CF-EC1-aby-p-19-0-UI.s1 UI-CF-EC1 Homo sapiens cDNA clone 
(gb|BU682070.1|), blast E-value=0, identity=96.06% 
               

               
               299-552, UI-E-CK1-afj-e-23-0-UI.s1 UI-E-CK1 Homo sapiens cDNA clone 
(gb|BU730061.1|), blast E-value=0, identity=96.06% 
               

               
               299-552, UI-E-CK1-afj-e-23-0-UI.s2 UI-E-CK1 Homo sapiens cDNA clone 
(gb|BU733779.1|), blast E-value=0, identity=96.06%

Aligned organism(s): 12 entry(ies)

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Aligned organism(s): 12 entry(ies)

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               30-552, gnl|bosTau2|chr7 (7650936-7651470)
               

               
               30-552, gnl|canFam2|chr20 (51383112-51382751)
               

               
               30-552, gnl|dasNov1|scaffold_134017 (600-246)
               

               
               30-552, gnl|hg17|chr19 (14121722-14122080)
               

               
               30-552, gnl|Hg17|chr19 (14122248-14121759)
               

               
               30-552, gnl|loxAfr1|scaffold_11853 (39779-39413)
               

               
               30-552, gnl|mm7|chr8 (82518612-82518268)
               

               
               30-552, gnl|Mm7|chr8 (82518100-82518584)
               

               
               30-552, gnl|monDom2|scaffold_159 (1384470-1384772)
               

               
               30-552, gnl|panTro1|chr20 (14756964-14757321)
               

               
               30-552, gnl|rheMac2|chr19 (13839346-13839706)
               

               
               30-552, gnl|rn3|chr19 (25895952-25896289)

Aligned organism(s): 12 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


               
               30-552, gnl|bosTau2|chr7 (7650936-7651470)
               

               
               30-552, gnl|canFam2|chr20 (51383112-51382751)
               

               
               30-552, gnl|dasNov1|scaffold_134017 (600-246)
               

               
               30-552, gnl|hg17|chr19 (14121722-14122080)
               

               
               30-552, gnl|Hg17|chr19 (14122248-14121759)
               

               
               30-552, gnl|loxAfr1|scaffold_11853 (39779-39413)
               

               
               30-552, gnl|mm7|chr8 (82518612-82518268)
               

               
               30-552, gnl|Mm7|chr8 (82518100-82518584)
               

               
               30-552, gnl|monDom2|scaffold_159 (1384470-1384772)
               

               
               30-552, gnl|panTro1|chr20 (14756964-14757321)
               

               
               30-552, gnl|rheMac2|chr19 (13839346-13839706)
               

               
               30-552, gnl|rn3|chr19 (25895952-25896289)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               ecc (0.345105)
               

               
               ebs (0.118301)

Expressed library(ies): 2 entry(ies)

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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


               
               ecc (0.345105)
               

               
               ebs (0.118301)

	30-342, - strand, RNAz p=0.999031
	299-552, - strand, RNAz p=0.992479
	383-552, + strand, RNAz p=0.993461

	353-504, + strand, RNAmicro p=0.999801
	77-171, - strand, RNAmicro p=0.966036
	104-193, + strand, RNAmicro p=0.93871

	30-342, LB0163.CR_J05 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb\|DT809429.1\|), blast E-value=0, identity=89.31%
	30-342, 1437939 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DT884722.1\|), blast E-value=0, identity=89.31%
	30-342, LB02816.CR_F06 GC_BGC-28 Bos taurus cDNA clone IMAGE (gb\|DV910041.1\|), blast E-value=0, identity=89.31%
	30-342, LB0187.CR_F19 GC_BGC-18 Bos taurus cDNA clone IMAGE (gb\|EE225984.1\|), blast E-value=0, identity=89.31%
	30-342, LB02219.CR_J22 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb\|EE240588.1\|), blast E-value=0, identity=89.31%
	30-342, LB02313.CR_I15 GC_BGC-23 Bos taurus cDNA clone IMAGE (gb\|EE246055.1\|), blast E-value=0, identity=89.31%
	299-552, DA345767 BRSSN2 Homo sapiens cDNA clone BRSSN2006597 5', mRNA (dbj\|DA345767.1\|), blast E-value=0, identity=96.06%
	299-552, DB363022 NT2RM4 Homo sapiens cDNA clone NT2RM4001480 3', mRNA (dbj\|DB363022.1\|), blast E-value=0, identity=96.06%
	299-552, naf55c10.x1 NCI_CGAP_Brn65 Homo sapiens cDNA clone IMAGE (gb\|BG152456.1\|), blast E-value=0, identity=96.06%
	299-552, UI-CF-EC1-aby-p-19-0-UI.s1 UI-CF-EC1 Homo sapiens cDNA clone (gb\|BU682070.1\|), blast E-value=0, identity=96.06%
	299-552, UI-E-CK1-afj-e-23-0-UI.s1 UI-E-CK1 Homo sapiens cDNA clone (gb\|BU730061.1\|), blast E-value=0, identity=96.06%
	299-552, UI-E-CK1-afj-e-23-0-UI.s2 UI-E-CK1 Homo sapiens cDNA clone (gb\|BU733779.1\|), blast E-value=0, identity=96.06%

	30-552, gnl\|bosTau2\|chr7 (7650936-7651470)
	30-552, gnl\|canFam2\|chr20 (51383112-51382751)
	30-552, gnl\|dasNov1\|scaffold_134017 (600-246)
	30-552, gnl\|hg17\|chr19 (14121722-14122080)
	30-552, gnl\|Hg17\|chr19 (14122248-14121759)
	30-552, gnl\|loxAfr1\|scaffold_11853 (39779-39413)
	30-552, gnl\|mm7\|chr8 (82518612-82518268)
	30-552, gnl\|Mm7\|chr8 (82518100-82518584)
	30-552, gnl\|monDom2\|scaffold_159 (1384470-1384772)
	30-552, gnl\|panTro1\|chr20 (14756964-14757321)
	30-552, gnl\|rheMac2\|chr19 (13839346-13839706)
	30-552, gnl\|rn3\|chr19 (25895952-25896289)