Non-Coding RNA Search

Ss1.1-Pig4-TMW8035M06.3

Sequence:


               
               ATTTGTGGGAGTCAGCTTCCTGTCCACCTCCCGATGAAGGCCGCCCAGCAGGTCTGGCTT
CCCAGAAGTTAACTGATAACATGGGGTTTGTCATGTCCTAAAGAGCAGAAGGGAGCTGGG
AGGGGGTGGGGGCCAGGGGGCAAGGAAAATTGCTACCTGATTTATTGAAGACTTCTCTTG
CCTTACACTTGGAGGTTCTAGAAAACCTCTTGCAGAACTTCACACATGACTCTTCAAGCC
ACACCCACCTGAAATCAAACCAAAGGAGTGCTGTGGCTCCCCTTGCCCTGACACCCCTTA
CCCTAGTCTTTTGTAGATTGCACTAATTTACATCCCAGTGAGAATCAACACTGTATCAGA
CCACAGACCTGCTGAGCTGCAGCCACTCACTCTAGGAGCTAAGGACCTGCATTTTCAGTT
TGTTCCTGTTGCCCAGGGGCCCTATTCTCACCTCATGCTGCTCCCCAGAGTAGATTAGGA
GGCTCAGCCCCCTGCTGCCCTTACCAGGACTAGGCCCTTAGCCCTGGGGCACTCTGTAGG
GGGACTGGAGCAGCCTAGTTCTTTTCCTATTTGTACCAAAGAGGAGCCTGGTGGGGAGAG
GGCGTGTGGCTCGGGCCTAGCGCTGGGAACCACAGTGATTCCCCAGGACACAACTCTGGG
GATGGGAGCCCAGGAGGGCAGCACCAGGTCCCTCCCCCCTTGGGAAGGGTAGCATGGGCT
AAGGAGGTGGCACTGGGTGAGGACCACTGGGCTAAGACCCATGGGCTAAGGAGGTGGCAC
TGGGTGAGGATCACTGGGCAGGAGCTGGAGAGGGAGGTGGAAGAGAATCCCGGGGGCACT
CCCAGCCAGCCCCCAGTCCTGTGCTGCCCCTGAGCAGACGGCTGTTCCTGATTGGTCACT
GGCCTTGGGCGAGGCCTGGACCTTTCAGAGGTGAACTTACATATGGGAACCAGTCCCAAA
CCCTAAGGGAAGGGACTTGGGTCCCCTTGTATTGAATAAGCTGTTTGGAGGAAGGCATCA
ATCCAGGAGGGTGGGGCAGTAAGAGAGGTTGGCAGAGTGGTTGCAGGGCCATGAGGGCTC
TGGAGAGCCAGCCTTGGAGCCTGCTCTTTCCCAGGGTGCTGGGCCCTTGTTGCCAAGGAG
CCCAGCCTCACTCAGCAGGAGGCGATCAGGCCCCTCCTCCCAGGAGGCAGGGTCTACTGA
CCAGAACTTAAATGCTTTTGAAATCCCTTAGATGTGGAAATATTTTTTCGAACCTGAAAA
TGCAGCTGGTAGAATTTCAATGGACGCATAATTCATGTAAAATATATTTTAGTTGATATT
TTGTAAAATGCACTTTTTGTGTGTGTCGACCCTGGTTTCTCAGATCTGTATTTCAGTGTT
TACAAGGGAGAGGAGGGCCTTTCCTCACCTCCCTTTTGACAGAGATTAGAAGTACTTCTT
TAAGAAAAAAAAATAAATTTGAGAAATTGTATTGATAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ATTTGTGGGAGTCAGCTTCCTGTCCACCTCCCGATGAAGGCCGCCCAGCAGGTCTGGCTT
CCCAGAAGTTAACTGATAACATGGGGTTTGTCATGTCCTAAAGAGCAGAAGGGAGCTGGG
AGGGGGTGGGGGCCAGGGGGCAAGGAAAATTGCTACCTGATTTATTGAAGACTTCTCTTG
CCTTACACTTGGAGGTTCTAGAAAACCTCTTGCAGAACTTCACACATGACTCTTCAAGCC
ACACCCACCTGAAATCAAACCAAAGGAGTGCTGTGGCTCCCCTTGCCCTGACACCCCTTA
CCCTAGTCTTTTGTAGATTGCACTAATTTACATCCCAGTGAGAATCAACACTGTATCAGA
CCACAGACCTGCTGAGCTGCAGCCACTCACTCTAGGAGCTAAGGACCTGCATTTTCAGTT
TGTTCCTGTTGCCCAGGGGCCCTATTCTCACCTCATGCTGCTCCCCAGAGTAGATTAGGA
GGCTCAGCCCCCTGCTGCCCTTACCAGGACTAGGCCCTTAGCCCTGGGGCACTCTGTAGG
GGGACTGGAGCAGCCTAGTTCTTTTCCTATTTGTACCAAAGAGGAGCCTGGTGGGGAGAG
GGCGTGTGGCTCGGGCCTAGCGCTGGGAACCACAGTGATTCCCCAGGACACAACTCTGGG
GATGGGAGCCCAGGAGGGCAGCACCAGGTCCCTCCCCCCTTGGGAAGGGTAGCATGGGCT
AAGGAGGTGGCACTGGGTGAGGACCACTGGGCTAAGACCCATGGGCTAAGGAGGTGGCAC
TGGGTGAGGATCACTGGGCAGGAGCTGGAGAGGGAGGTGGAAGAGAATCCCGGGGGCACT
CCCAGCCAGCCCCCAGTCCTGTGCTGCCCCTGAGCAGACGGCTGTTCCTGATTGGTCACT
GGCCTTGGGCGAGGCCTGGACCTTTCAGAGGTGAACTTACATATGGGAACCAGTCCCAAA
CCCTAAGGGAAGGGACTTGGGTCCCCTTGTATTGAATAAGCTGTTTGGAGGAAGGCATCA
ATCCAGGAGGGTGGGGCAGTAAGAGAGGTTGGCAGAGTGGTTGCAGGGCCATGAGGGCTC
TGGAGAGCCAGCCTTGGAGCCTGCTCTTTCCCAGGGTGCTGGGCCCTTGTTGCCAAGGAG
CCCAGCCTCACTCAGCAGGAGGCGATCAGGCCCCTCCTCCCAGGAGGCAGGGTCTACTGA
CCAGAACTTAAATGCTTTTGAAATCCCTTAGATGTGGAAATATTTTTTCGAACCTGAAAA
TGCAGCTGGTAGAATTTCAATGGACGCATAATTCATGTAAAATATATTTTAGTTGATATT
TTGTAAAATGCACTTTTTGTGTGTGTCGACCCTGGTTTCTCAGATCTGTATTTCAGTGTT
TACAAGGGAGAGGAGGGCCTTTCCTCACCTCCCTTTTGACAGAGATTAGAAGTACTTCTT
TAAGAAAAAAAAATAAATTTGAGAAATTGTATTGATAAAAAAAAAAAA

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

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

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               44-278, - strand, RNAz p=0.999277
               

               
               477-592, + strand, RNAz p=0.947879
               

               
               874-1060, + strand, RNAz p=0.895362
               

               
               1325-1484, + strand, RNAz p=0.93235

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


               
               44-278, - strand, RNAz p=0.999277
               

               
               477-592, + strand, RNAz p=0.947879
               

               
               874-1060, + strand, RNAz p=0.895362
               

               
               1325-1484, + strand, RNAz p=0.93235

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               1370-1435, + strand, RNAmicro p=0.983495

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


               
               1370-1435, + strand, RNAmicro p=0.983495

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               141-117, CJ001035 full-length enriched swine cDNA library, adult liver Sus 
(dbj|CJ001035.1|), blast E-value=5e-30, identity=98.65% 
               

               
               141-278, 208486 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BE754839.1|), 
blast E-value=0, identity=97.16% 
               

               
               152-278, BP250016A20F11 Soares normalized bovine placenta Bos taurus cDNA 
(gb|BF039579.1|), blast E-value=0, identity=96.92% 
               

               
               175-278, BP250019B10D1 Soares normalized bovine placenta Bos taurus cDNA 
(gb|BF042856.1|), blast E-value=0, identity=99.04% 
               

               
               141-278, LIB3731-004-Q6-K1-B10 LIB3731 Canis familiaris cDNA clone 
(gb|DN368548.1|), blast E-value=0, identity=95.77% 
               

               
               141-278, LB02916.CR_L07 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV919659.1|), 
blast E-value=0, identity=97.16%

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


               
               141-117, CJ001035 full-length enriched swine cDNA library, adult liver Sus 
(dbj|CJ001035.1|), blast E-value=5e-30, identity=98.65% 
               

               
               141-278, 208486 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BE754839.1|), 
blast E-value=0, identity=97.16% 
               

               
               152-278, BP250016A20F11 Soares normalized bovine placenta Bos taurus cDNA 
(gb|BF039579.1|), blast E-value=0, identity=96.92% 
               

               
               175-278, BP250019B10D1 Soares normalized bovine placenta Bos taurus cDNA 
(gb|BF042856.1|), blast E-value=0, identity=99.04% 
               

               
               141-278, LIB3731-004-Q6-K1-B10 LIB3731 Canis familiaris cDNA clone 
(gb|DN368548.1|), blast E-value=0, identity=95.77% 
               

               
               141-278, LB02916.CR_L07 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV919659.1|), 
blast E-value=0, identity=97.16%

Homologous human UTR: 3 entry(ies)

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Homologous human UTR: 3 entry(ies)

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               3' of NM_014952, +
               

               
               3' of NM_014952, +
               

               
               3' of NM_014952, +

Homologous human UTR: 3 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of NM_014952, +
               

               
               3' of NM_014952, +
               

               
               3' of NM_014952, +

Aligned organism(s): 9 entry(ies)

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Aligned organism(s): 9 entry(ies)

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               5-752, gnl|bosTau2|chr10 (27076605-27077365)
               

               
               5-752, gnl|Hg17|chr15 (38546279-38547059)
               

               
               5-752, gnl|Mm7|chr2 (118664008-118664725)
               


               
               758-1060, gnl|bosTau2|chr10 (27077324-27077627)
               

               
               758-1060, gnl|Hg17|chr15 (38547018-38547316)
               

               
               758-1060, gnl|Mm7|chr2 (118664683-118665020)
               


               
               1131-1484, gnl|bosTau2|chr10 (27077632-27077975)
               

               
               1131-1484, gnl|Hg17|chr15 (38547370-38547724)
               

               
               1131-1484, gnl|Mm7|chr2 (118665025-118665377)

Aligned organism(s): 9 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


               
               5-752, gnl|bosTau2|chr10 (27076605-27077365)
               

               
               5-752, gnl|Hg17|chr15 (38546279-38547059)
               

               
               5-752, gnl|Mm7|chr2 (118664008-118664725)
               


               
               758-1060, gnl|bosTau2|chr10 (27077324-27077627)
               

               
               758-1060, gnl|Hg17|chr15 (38547018-38547316)
               

               
               758-1060, gnl|Mm7|chr2 (118664683-118665020)
               


               
               1131-1484, gnl|bosTau2|chr10 (27077632-27077975)
               

               
               1131-1484, gnl|Hg17|chr15 (38547370-38547724)
               

               
               1131-1484, gnl|Mm7|chr2 (118665025-118665377)

Expressed library(ies): 12 entry(ies)

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Expressed library(ies): 12 entry(ies)

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               pla (0.401016)
               

               
               fcc (0.39557)
               

               
               spl (0.286369)
               

               
               csk (0.281492)
               

               
               fli (0.202881)
               

               
               nlu (0.191681)
               

               
               duo (0.172801)
               

               
               hyp (0.142837)
               

               
               lnt (0.142308)
               

               
               eru (0.120048)
               

               
               med (0.116252)
               

               
               ecc (0.115035)

Expressed library(ies): 12 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


               
               pla (0.401016)
               

               
               fcc (0.39557)
               

               
               spl (0.286369)
               

               
               csk (0.281492)
               

               
               fli (0.202881)
               

               
               nlu (0.191681)
               

               
               duo (0.172801)
               

               
               hyp (0.142837)
               

               
               lnt (0.142308)
               

               
               eru (0.120048)
               

               
               med (0.116252)
               

               
               ecc (0.115035)

	44-278, - strand, RNAz p=0.999277
	477-592, + strand, RNAz p=0.947879
	874-1060, + strand, RNAz p=0.895362
	1325-1484, + strand, RNAz p=0.93235

	141-117, CJ001035 full-length enriched swine cDNA library, adult liver Sus (dbj\|CJ001035.1\|), blast E-value=5e-30, identity=98.65%
	141-278, 208486 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb\|BE754839.1\|), blast E-value=0, identity=97.16%
	152-278, BP250016A20F11 Soares normalized bovine placenta Bos taurus cDNA (gb\|BF039579.1\|), blast E-value=0, identity=96.92%
	175-278, BP250019B10D1 Soares normalized bovine placenta Bos taurus cDNA (gb\|BF042856.1\|), blast E-value=0, identity=99.04%
	141-278, LIB3731-004-Q6-K1-B10 LIB3731 Canis familiaris cDNA clone (gb\|DN368548.1\|), blast E-value=0, identity=95.77%
	141-278, LB02916.CR_L07 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|DV919659.1\|), blast E-value=0, identity=97.16%

	5-752, gnl\|bosTau2\|chr10 (27076605-27077365)
	5-752, gnl\|Hg17\|chr15 (38546279-38547059)
	5-752, gnl\|Mm7\|chr2 (118664008-118664725)

	758-1060, gnl\|bosTau2\|chr10 (27077324-27077627)
	758-1060, gnl\|Hg17\|chr15 (38547018-38547316)
	758-1060, gnl\|Mm7\|chr2 (118664683-118665020)

	1131-1484, gnl\|bosTau2\|chr10 (27077632-27077975)
	1131-1484, gnl\|Hg17\|chr15 (38547370-38547724)
	1131-1484, gnl\|Mm7\|chr2 (118665025-118665377)

	pla (0.401016)
	fcc (0.39557)
	spl (0.286369)
	csk (0.281492)
	fli (0.202881)
	nlu (0.191681)
	duo (0.172801)
	hyp (0.142837)
	lnt (0.142308)
	eru (0.120048)
	med (0.116252)
	ecc (0.115035)