Non-Coding RNA Search

Ss1.1-nep08c_l10.5

Sequence:


               
               CTGTCTTGTTTTCATAGTTCTTGTTCACCTCAGTAGCAGGGTCTTTTGAAAGGATCAGTT
TGTGATATGACAGAGAAGAAAATAGCCAATGATTGCTCTTGAGTGTGCCCGAGTGACTTC
CAGGTCACGGAGAGAGATGGGGAGAGTTGGAGCAAAGCCTTCCCAACAGATGAGCTTGCT
CCCAGCAAACTTAACTGGAGGCCGCAGCCGCCTAGCAGCAGCACTGCTTCTTGCAGCAGC
TATTCTGCTGGCAACAGCACTTCTGCTGGCAACAGCCCTTCCCACAGCCACAACCACACG
AGTTGCACCTGCAGGTGCGGCGGTAGCAGCAGACCACGGGGGTGCTGCAGCAGCCCCCAC
AGCAGCCACAGCAGCAGGGGCAGCAGCCAGAACAGCAGCCCACTCGGTAGCATCTGCAGC
TGGTACAGCTGTTGCAGCCACCACAGCCACCACTGCAGCCACCGCAGCCACTGCTGCAGC
CACCGCAACCACCGCAGCCTCCGCAACCACCACAACTTCCACAGCCACAGCAGCCCATGG
TGTCGTTAGAGA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTGTCTTGTTTTCATAGTTCTTGTTCACCTCAGTAGCAGGGTCTTTTGAAAGGATCAGTT
TGTGATATGACAGAGAAGAAAATAGCCAATGATTGCTCTTGAGTGTGCCCGAGTGACTTC
CAGGTCACGGAGAGAGATGGGGAGAGTTGGAGCAAAGCCTTCCCAACAGATGAGCTTGCT
CCCAGCAAACTTAACTGGAGGCCGCAGCCGCCTAGCAGCAGCACTGCTTCTTGCAGCAGC
TATTCTGCTGGCAACAGCACTTCTGCTGGCAACAGCCCTTCCCACAGCCACAACCACACG
AGTTGCACCTGCAGGTGCGGCGGTAGCAGCAGACCACGGGGGTGCTGCAGCAGCCCCCAC
AGCAGCCACAGCAGCAGGGGCAGCAGCCAGAACAGCAGCCCACTCGGTAGCATCTGCAGC
TGGTACAGCTGTTGCAGCCACCACAGCCACCACTGCAGCCACCGCAGCCACTGCTGCAGC
CACCGCAACCACCGCAGCCTCCGCAACCACCACAACTTCCACAGCCACAGCAGCCCATGG
TGTCGTTAGAGA

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               Q9D230_MOUSE

Coded protein: 1 entry(ies)

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Protein identifier


               
               Q9D230_MOUSE

Predicted RNA structure(s): 2 entry(ies)

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Predicted RNA structure(s): 2 entry(ies)

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               204-492, - strand, RNAz p=0.999489
               

               
               346-490, - strand, RNAz p=0.999726

Predicted RNA structure(s): 2 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


               
               204-492, - strand, RNAz p=0.999489
               

               
               346-490, - strand, RNAz p=0.999726

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               254-581, - strand, RNAmicro p=0.999999

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


               
               254-581, - strand, RNAmicro p=0.999999

Similar Transcript(s): 7 entry(ies)

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Similar Transcript(s): 7 entry(ies)

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               211-471, DB803954 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB803954.1|), blast E-value=4e-28, identity=96.2% 
               

               
               211-471, DB806008 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB806008.1|), blast E-value=1e-25, identity=94.94% 
               

               
               208-341, CES005526 Bos taurus skin cDNA library Bos taurus cDNA clone 
(gb|CF763597.1|), blast E-value=2e-39, identity=91.04% 
               

               
               218-341, CES001771 Bos taurus skin cDNA library Bos taurus cDNA clone 
(gb|CF769234.1|), blast E-value=1e-31, identity=89.52% 
               

               
               218-341, LB02962.CR_D17 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE358441.1|), 
blast E-value=2e-33, identity=90.32% 
               

               
               218-341, LB02967.CR_C16 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE364493.1|), 
blast E-value=4e-31, identity=89.52% 
               

               
               400-471, DB803954 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB803954.1|), blast E-value=3e-24, identity=95.83%

Similar Transcript(s): 7 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


               
               211-471, DB803954 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB803954.1|), blast E-value=4e-28, identity=96.2% 
               

               
               211-471, DB806008 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB806008.1|), blast E-value=1e-25, identity=94.94% 
               

               
               208-341, CES005526 Bos taurus skin cDNA library Bos taurus cDNA clone 
(gb|CF763597.1|), blast E-value=2e-39, identity=91.04% 
               

               
               218-341, CES001771 Bos taurus skin cDNA library Bos taurus cDNA clone 
(gb|CF769234.1|), blast E-value=1e-31, identity=89.52% 
               

               
               218-341, LB02962.CR_D17 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE358441.1|), 
blast E-value=2e-33, identity=90.32% 
               

               
               218-341, LB02967.CR_C16 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE364493.1|), 
blast E-value=4e-31, identity=89.52% 
               

               
               400-471, DB803954 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB803954.1|), blast E-value=3e-24, identity=95.83%

Aligned organism(s): 14 entry(ies)

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Aligned organism(s): 14 entry(ies)

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               204-552, gnl|bosTau2|chr2 (69334655-69334291)
               

               
               204-552, gnl|canFam2|chr25 (43358405-43358936)
               

               
               204-552, gnl|dasNov1|scaffold_34800 (42784-42283)
               

               
               204-552, gnl|echTel1|scaffold_292063 (87584-87028)
               

               
               204-552, gnl|hg17|chr2 (228307560-228308071)
               

               
               204-552, gnl|Hg17|chr2 (228308049-228307706)
               

               
               204-552, gnl|loxAfr1|scaffold_18189 (22876-23402)
               

               
               204-552, gnl|mm7|chr1 (83168812-83169482)
               

               
               204-552, gnl|Mm7|chr1 (83169455-83168957)
               

               
               204-552, gnl|monDom2|scaffold_28 (9235278-9235827)
               

               
               204-552, gnl|oryCun1|scaffold_139433 (5633-5136)
               

               
               204-552, gnl|panTro1|chr13 (118904374-118904849)
               

               
               204-552, gnl|rheMac2|chr12 (91509838-91510343)
               

               
               204-552, gnl|rn3|chr9 (82444536-82445073)

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


               
               204-552, gnl|bosTau2|chr2 (69334655-69334291)
               

               
               204-552, gnl|canFam2|chr25 (43358405-43358936)
               

               
               204-552, gnl|dasNov1|scaffold_34800 (42784-42283)
               

               
               204-552, gnl|echTel1|scaffold_292063 (87584-87028)
               

               
               204-552, gnl|hg17|chr2 (228307560-228308071)
               

               
               204-552, gnl|Hg17|chr2 (228308049-228307706)
               

               
               204-552, gnl|loxAfr1|scaffold_18189 (22876-23402)
               

               
               204-552, gnl|mm7|chr1 (83168812-83169482)
               

               
               204-552, gnl|Mm7|chr1 (83169455-83168957)
               

               
               204-552, gnl|monDom2|scaffold_28 (9235278-9235827)
               

               
               204-552, gnl|oryCun1|scaffold_139433 (5633-5136)
               

               
               204-552, gnl|panTro1|chr13 (118904374-118904849)
               

               
               204-552, gnl|rheMac2|chr12 (91509838-91510343)
               

               
               204-552, gnl|rn3|chr9 (82444536-82445073)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               nep (0.551775)

Expressed library(ies): 1 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


               
               nep (0.551775)

	204-492, - strand, RNAz p=0.999489
	346-490, - strand, RNAz p=0.999726

	211-471, DB803954 full-length enriched swine cDNA library, adult skin Sus (dbj\|DB803954.1\|), blast E-value=4e-28, identity=96.2%
	211-471, DB806008 full-length enriched swine cDNA library, adult skin Sus (dbj\|DB806008.1\|), blast E-value=1e-25, identity=94.94%
	208-341, CES005526 Bos taurus skin cDNA library Bos taurus cDNA clone (gb\|CF763597.1\|), blast E-value=2e-39, identity=91.04%
	218-341, CES001771 Bos taurus skin cDNA library Bos taurus cDNA clone (gb\|CF769234.1\|), blast E-value=1e-31, identity=89.52%
	218-341, LB02962.CR_D17 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE358441.1\|), blast E-value=2e-33, identity=90.32%
	218-341, LB02967.CR_C16 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE364493.1\|), blast E-value=4e-31, identity=89.52%
	400-471, DB803954 full-length enriched swine cDNA library, adult skin Sus (dbj\|DB803954.1\|), blast E-value=3e-24, identity=95.83%

	204-552, gnl\|bosTau2\|chr2 (69334655-69334291)
	204-552, gnl\|canFam2\|chr25 (43358405-43358936)
	204-552, gnl\|dasNov1\|scaffold_34800 (42784-42283)
	204-552, gnl\|echTel1\|scaffold_292063 (87584-87028)
	204-552, gnl\|hg17\|chr2 (228307560-228308071)
	204-552, gnl\|Hg17\|chr2 (228308049-228307706)
	204-552, gnl\|loxAfr1\|scaffold_18189 (22876-23402)
	204-552, gnl\|mm7\|chr1 (83168812-83169482)
	204-552, gnl\|Mm7\|chr1 (83169455-83168957)
	204-552, gnl\|monDom2\|scaffold_28 (9235278-9235827)
	204-552, gnl\|oryCun1\|scaffold_139433 (5633-5136)
	204-552, gnl\|panTro1\|chr13 (118904374-118904849)
	204-552, gnl\|rheMac2\|chr12 (91509838-91510343)
	204-552, gnl\|rn3\|chr9 (82444536-82445073)