Non-Coding RNA Search

Ss1.1-rcki37_n7.5

Sequence:


               
               CTGTTCAGTACCAAGGGGCCAGACTGGGAGTGGTAGAAGGGCCACTCTCTCTTTGGTTTT
AGGTTTTGACGTTATTTTCTTTATTTTTAAAAAGTCTATGACAGTTGCATTGTTTTTTCT
TCCCCTTGAGCAGCCCTATCCCAGGATCCTGTTTCTCTGGGAGGTCCTTAGAGCCCCTAA
CCATCCCACACTTTTCACTTTGTTTTCCACCTCATTCATTCTCTGTACTTATTATCACAG
TGTTTTGCACTTGATTATGTATCCTTCACTCTCTTCTCTTCATCCTGTCATTCCCTCACT
AGGTCTGGTGAGGGAGGTTGGGGGGAGGTGGGAGGAGGGGTAGAAGTGGAAGAATAGGAA
GGATGTTACCTCTTTTGTTACTTTAAAAAAAAAAAAGTTTGTTTGGTGGCAGCAATCTCC
CTGTCCCTATCACTGTTAGAGGCCTACTTTTATATCTATAAATATATTAAAAAGCAAGTT
AAAATTGGATGTATCACATTAAAATTATTGTCAAAGTTTAAATACTATATATTCTCTATG
ACTGCAATAAAG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTGTTCAGTACCAAGGGGCCAGACTGGGAGTGGTAGAAGGGCCACTCTCTCTTTGGTTTT
AGGTTTTGACGTTATTTTCTTTATTTTTAAAAAGTCTATGACAGTTGCATTGTTTTTTCT
TCCCCTTGAGCAGCCCTATCCCAGGATCCTGTTTCTCTGGGAGGTCCTTAGAGCCCCTAA
CCATCCCACACTTTTCACTTTGTTTTCCACCTCATTCATTCTCTGTACTTATTATCACAG
TGTTTTGCACTTGATTATGTATCCTTCACTCTCTTCTCTTCATCCTGTCATTCCCTCACT
AGGTCTGGTGAGGGAGGTTGGGGGGAGGTGGGAGGAGGGGTAGAAGTGGAAGAATAGGAA
GGATGTTACCTCTTTTGTTACTTTAAAAAAAAAAAAGTTTGTTTGGTGGCAGCAATCTCC
CTGTCCCTATCACTGTTAGAGGCCTACTTTTATATCTATAAATATATTAAAAAGCAAGTT
AAAATTGGATGTATCACATTAAAATTATTGTCAAAGTTTAAATACTATATATTCTCTATG
ACTGCAATAAAG

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

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

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               1-369, - strand, RNAz p=0.999954
               

               
               97-215, - strand, RNAz p=0.782883
               

               
               403-502, - strand, RNAz p=0.912477

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


               
               1-369, - strand, RNAz p=0.999954
               

               
               97-215, - strand, RNAz p=0.782883
               

               
               403-502, - strand, RNAz p=0.912477

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               287-369, + strand, RNAmicro p=0.999994
               

               
               5-69, + strand, RNAmicro p=0.999463

Predicted microRNA(s): 2 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


               
               287-369, + strand, RNAmicro p=0.999994
               

               
               5-69, + strand, RNAmicro p=0.999463

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               175-369, 158423 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE668575.1|), 
blast E-value=0, identity=90.26% 
               

               
               1-285, SlLH03c18b08f1 squirrel heart library 1 Spermophilus lateralis cDNA 
(gb|CO737589.1|), blast E-value=0, identity=85.66% 
               

               
               175-117, BovGen_06173 normal cattle brain Bos taurus cDNA clone 
(gb|CO877848.1|), blast E-value=0.000000000000007, identity=88.76% 
               

               
               175-117, LB03013.CR_M01 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV928503.1|), 
blast E-value=0.0000000000004, identity=89.74% 
               

               
               175-117, LB03024.CR_A14 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV931867.1|), 
blast E-value=0.0000000000004, identity=89.74% 
               

               
               175-117, LB03078.CR_B13 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE385074.1|), 
blast E-value=0.000000000000002, identity=88.3%

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


               
               175-369, 158423 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb|BE668575.1|), 
blast E-value=0, identity=90.26% 
               

               
               1-285, SlLH03c18b08f1 squirrel heart library 1 Spermophilus lateralis cDNA 
(gb|CO737589.1|), blast E-value=0, identity=85.66% 
               

               
               175-117, BovGen_06173 normal cattle brain Bos taurus cDNA clone 
(gb|CO877848.1|), blast E-value=0.000000000000007, identity=88.76% 
               

               
               175-117, LB03013.CR_M01 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV928503.1|), 
blast E-value=0.0000000000004, identity=89.74% 
               

               
               175-117, LB03024.CR_A14 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV931867.1|), 
blast E-value=0.0000000000004, identity=89.74% 
               

               
               175-117, LB03078.CR_B13 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE385074.1|), 
blast E-value=0.000000000000002, identity=88.3%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_015726, -

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_015726, -

Aligned organism(s): 14 entry(ies)

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Aligned organism(s): 14 entry(ies)

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               1-552, gnl|bosTau2|chr3 (4823329-4823895)
               

               
               1-552, gnl|canFam2|chr38 (25001098-24999635)
               

               
               1-552, gnl|dasNov1|scaffold_499 (37102-38615)
               

               
               1-552, gnl|echTel1|scaffold_319549 (58017-59407)
               

               
               1-552, gnl|hg17|chr1 (156998405-156999967)
               

               
               1-552, gnl|Hg17|chr1 (157000079-156999537)
               

               
               1-552, gnl|loxAfr1|scaffold_56451 (10091-8565)
               

               
               1-552, gnl|mm7|chr1 (172166725-172165289)
               

               
               1-552, gnl|Mm7|chr1 (172165179-172165711)
               

               
               1-552, gnl|monDom2|scaffold_13 (61312082-61310493)
               

               
               1-552, gnl|oryCun1|scaffold_198225 (42333-43859)
               

               
               1-552, gnl|panTro1|chr1 (139076563-139078125)
               

               
               1-552, gnl|rheMac2|chr1 (138837737-138839282)
               

               
               1-552, gnl|rn3|chr13 (88376379-88374981)

Aligned organism(s): 14 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


               
               1-552, gnl|bosTau2|chr3 (4823329-4823895)
               

               
               1-552, gnl|canFam2|chr38 (25001098-24999635)
               

               
               1-552, gnl|dasNov1|scaffold_499 (37102-38615)
               

               
               1-552, gnl|echTel1|scaffold_319549 (58017-59407)
               

               
               1-552, gnl|hg17|chr1 (156998405-156999967)
               

               
               1-552, gnl|Hg17|chr1 (157000079-156999537)
               

               
               1-552, gnl|loxAfr1|scaffold_56451 (10091-8565)
               

               
               1-552, gnl|mm7|chr1 (172166725-172165289)
               

               
               1-552, gnl|Mm7|chr1 (172165179-172165711)
               

               
               1-552, gnl|monDom2|scaffold_13 (61312082-61310493)
               

               
               1-552, gnl|oryCun1|scaffold_198225 (42333-43859)
               

               
               1-552, gnl|panTro1|chr1 (139076563-139078125)
               

               
               1-552, gnl|rheMac2|chr1 (138837737-138839282)
               

               
               1-552, gnl|rn3|chr13 (88376379-88374981)

Expressed library(ies): 6 entry(ies)

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Expressed library(ies): 6 entry(ies)

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               sto (0.179824)
               

               
               cki (0.165235)
               

               
               cli (0.152812)
               

               
               ebs (0.118301)
               

               
               spc (0.113366)
               

               
               cty (0.10408)

Expressed library(ies): 6 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


               
               sto (0.179824)
               

               
               cki (0.165235)
               

               
               cli (0.152812)
               

               
               ebs (0.118301)
               

               
               spc (0.113366)
               

               
               cty (0.10408)

	1-369, - strand, RNAz p=0.999954
	97-215, - strand, RNAz p=0.782883
	403-502, - strand, RNAz p=0.912477

	287-369, + strand, RNAmicro p=0.999994
	5-69, + strand, RNAmicro p=0.999463

	175-369, 158423 MARC 4BOV Bos taurus cDNA 5', mRNA sequence (gb\|BE668575.1\|), blast E-value=0, identity=90.26%
	1-285, SlLH03c18b08f1 squirrel heart library 1 Spermophilus lateralis cDNA (gb\|CO737589.1\|), blast E-value=0, identity=85.66%
	175-117, BovGen_06173 normal cattle brain Bos taurus cDNA clone (gb\|CO877848.1\|), blast E-value=0.000000000000007, identity=88.76%
	175-117, LB03013.CR_M01 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|DV928503.1\|), blast E-value=0.0000000000004, identity=89.74%
	175-117, LB03024.CR_A14 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|DV931867.1\|), blast E-value=0.0000000000004, identity=89.74%
	175-117, LB03078.CR_B13 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE385074.1\|), blast E-value=0.000000000000002, identity=88.3%

	1-552, gnl\|bosTau2\|chr3 (4823329-4823895)
	1-552, gnl\|canFam2\|chr38 (25001098-24999635)
	1-552, gnl\|dasNov1\|scaffold_499 (37102-38615)
	1-552, gnl\|echTel1\|scaffold_319549 (58017-59407)
	1-552, gnl\|hg17\|chr1 (156998405-156999967)
	1-552, gnl\|Hg17\|chr1 (157000079-156999537)
	1-552, gnl\|loxAfr1\|scaffold_56451 (10091-8565)
	1-552, gnl\|mm7\|chr1 (172166725-172165289)
	1-552, gnl\|Mm7\|chr1 (172165179-172165711)
	1-552, gnl\|monDom2\|scaffold_13 (61312082-61310493)
	1-552, gnl\|oryCun1\|scaffold_198225 (42333-43859)
	1-552, gnl\|panTro1\|chr1 (139076563-139078125)
	1-552, gnl\|rheMac2\|chr1 (138837737-138839282)
	1-552, gnl\|rn3\|chr13 (88376379-88374981)

	sto (0.179824)
	cki (0.165235)
	cli (0.152812)
	ebs (0.118301)
	spc (0.113366)
	cty (0.10408)